LOOPP parallel driver v5.0 (06/13/08 15:45 EDT) with LOOPP v3.0 (compiled Jul 11 2008 17:20:20)
[NEWSABLE] [HSHFL] [ENE] [NEWALICHOICE]
This is HTML output, the other options are plain text, CASP AL and CASP TS formats.
If an error occured during execution it is logged in plain text version only,
there is no need to look for an error if this file ends with 'DONE' statement.
STARTING:Fri Aug 15 15:55:24 2008 EST
INPUT:
sim_min = 40.0% minimum sequence identity (%)
sim_max = 80.0% maximum sequence identity (%)
len_dif = 20.0% maximum length difference (% of query sequence length)
between query and homolog
nmax = 1 maximum number of homologous sequences (including query sequence)
maxout = 5 maximum number of outputted matches
strict = 0 all alignments will be accepted from LOOPP results
for homologs; they will be translated to query sequence
alignments using BLAST results
casp = 5 maximum number of outputted matches in CASP format
align = 'g' only corresponding global alignments will be reported
maxdiff = 50.0% only alignments differing no more than 50.0% from the query
sequence will be reported, or when reject=0, corresponding local
alignments will be reported
reject = 1 alignments shorter more than 50.0% from the query sequence
will be rejected
seccut = 0.00 structures with sec. str. score below seccut will be rejected
secdb = 1 type of secondary structure description: 1 - DSSB, 0 - phi/psi map
tasktb = 11111111111111111111 type of initial calculations
pdbcut = 60.0% pdb sequence identity threshold (%)
pdbstop = 0 stop if PDB structure with similarity above pdbcut found
domains = 0 query sequence will be decomposed into putative domains if =1
maxall = 300 maximum number of models evaluated in the second stage
refstr = 0 if equal to 1 rmsd distances between all hits and a reference structure
will be reported
maxpdb = 5 number of top PDB hits added to the second stage scoring
maxdyn = 5 number of dynamic domain entries from database added to the second stage scoring
beautify = 0 use pdb beautifier
rmsdtables = 1 compute rmsd tables between hits
local LOOPP/BLAST database will be used
input file T0436
--> 419 residues, sequence name: T0436
Database: T:\CBSU\blastdb\20080108\nr
-> 42 homolog sequences with sequence identity from 40.0% to 80.0% satisfying length constraints found
-> 0 representatives will be used in search (nmax=1 including query sequence)
Histogram of all homolog sequences found by BLAST (e-value cutoff 0.01, length constr.) by sequence identity:
| 00%-10% | 10%-20% | 20%-30% | 30%-40% | 40%-50% | 50%-60% | 60%-70% | 70%-80% | 80%-90% | 90%-100% |
| 0 | 0 | 10 | 1 | 26 | 11 | 4 | 1 | 0 | 1 |
1 | 2 | 3 | 4 | 5 | |
1 | 0.00 | 2.14 | 5.74 | 5.95 | 4.68 |
2 | 2.14 | 0.00 | 5.56 | 5.94 | 4.52 |
3 | 5.74 | 5.56 | 0.00 | 6.43 | 4.48 |
4 | 5.95 | 5.94 | 6.43 | 0.00 | 6.96 |
5 | 4.68 | 4.52 | 4.48 | 6.96 | 0.00 |
Similarity table for hits: percentage of chain fitting below 3Å RMSD (Cells are shaded according to similarity starting at 30%)
1 | 2 | 3 | 4 | 5 | |
1 | 100.00 | 100.00 | 41.25 | 35.84 | 71.60 |
2 | 100.00 | 100.00 | 44.75 | 35.41 | 71.01 |
3 | 41.25 | 44.75 | 100.00 | 25.56 | 46.00 |
4 | 35.84 | 35.41 | 25.56 | 100.00 | 35.66 |
5 | 71.60 | 71.01 | 46.00 | 35.66 | 100.00 |
Similarity table for hits: percentage of chain fitting below 6Å RMSD (Cells are shaded according to similarity starting at 50%)
1 | 2 | 3 | 4 | 5 | |
1 | 100.00 | 100.00 | 100.00 | 100.00 | 100.00 |
2 | 100.00 | 100.00 | 100.00 | 100.00 | 100.00 |
3 | 100.00 | 100.00 | 100.00 | 72.68 | 100.00 |
4 | 100.00 | 100.00 | 72.68 | 100.00 | 84.04 |
5 | 100.00 | 100.00 | 100.00 | 84.04 | 100.00 |
ALIGNMENTS
--> hit 1 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]
secondary structure: 43.08% helical, 14.10% extended, 42.82% loops/other (query: 46.78% 12.89% 40.33%)
SCOP classification:
name SCOP SCOP_stat confidence score homolog hits length seq. align ENE TE13 old CGenergy SIFT2 tma1 tma2 |-------OPTM------| |-------SEQ (global)-------| |-------SEQ (local)-------| |-------TRD (global)-------| |-------TRD (local)-------| |-------TRS (global)-------| |-------TRS (local)-------| |-------TSS (global)-------| |-------TSS (local)-------| |-------TSC (global)-------| |-------TSC (local)-------| |-------PSM (global)-------| |-------PSM (local)-------| |-------SRF (global)-------| |-------SRF (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------| sec. str.
(%) ident. src. all-atom all-atom score all-atom all-atom all-atom all-atom r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy pos. comp.
2DTV_A not_found 70.70.70.24 NONE -110.726 0 1 90.69% 19.01% OPTM -1295.862 -1041.790 8.207 0.582 0.764 0.932 0.965 82.450 -124.1 10.840 260.500 -317.5 12.430 215.500 -346.5 1.240 13.860 -33.8 -0.490 -3.340 -58.2 6.470 47.530 -19.8 9.030 30.250 -60.0 18.750 99.390 -130.8 22.470 74.380 -150.9 -30.000 138.000 -310.0 -30.000 105.000 -312.0 18.350 452.000 -354.0 46.030 319.000 -373.0 16.740 188.000 -346.0 20.300 144.000 -362.0 5.000 -95.7 -0.120 -18.2 0.000 -9.3e+061 5.000 -95.7 0.176 -13.0 0.18 0.90
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
HH--HHHHHHHHHHH----EEE------------HHHHHHHH--HHHH----HHHH--------HHHHHHHHHH------
Query: 12 AQVREEVTAKYAELKAKNLSLDLTRGKPSAEQLDLSNDLLSLPGGDFRTKDGVDCRNYGGLLGIADIRELWAEALGLPAD 91
Sbjct: 15 GRIQASTIRELLKLTQRPGILSFAGGLPAPELFP--KEEAAEAAARILREKGEVALQYSPTEGYAPLRAFVAEWIGVRPE 92
-----HHHHHH--------EE------------H HHHHHHHHHHHHHHHHHH---------HHHHHHHHHHH------
-EEEE--HHHHHHHHHHHHHHH----------------EEEE----HHHHHHHHHH----EEEE--------HHHHHHHH
Query: 92 LVVAQDGSSLNIMFDLISWSYTWGNNDSSRPWSAEEKVKWLCPVPGYDRHFTITEHFGFEMINVPMTDEGPDMGVVRELV 171
Sbjct: 93 EVLITTGS--QQALDLVGKVFLD------------EGSPVLLEAPSYMGAIQAFRLQGPRFLTVPAGEEGPDLDALEEVL 158
EEEE--HH HHHHHHHHHH--- --EEEEEE---HHHHHHHH----EEEEEEEE--EE-HHHHHHHHH
H----EEEEEE------------HHHHHHHHHHHHH----EEEE--HHHH------------HHHHHHH------EEEE-
Query: 172 KDPQVKGMWTVPVFGNPTGVTFSEQTCRELAEMSTAAPDFRIVWDNAYALHTLSDEFPIVHNVIEFAQAAGNPNRFWFMS 251
Sbjct: 159 KRERPRFLYLIPSFQNPTGGLTPLPARKRLLQMVMERGLVVVEDDAYRELYFGEARLP---SLFELAREAGYPG-VIYLG 234
H-----EEE-------------HHHHHHHHHHHHHH---EEEE--------------- HHHHHHHH----E EEEEE
---HHH----EEEEEE--HHHHHHHHHHHHHH-----HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Query: 252 STSKITHAGSGVSFFASSKENIEWYASHANVRGIGPNKLNQLAHAQFFGDVAGLKAHMLKHAASLAPKFERVLEILDSRL 331
Sbjct: 235 SFSKVLSPGLRVAFAVAHPEALQKLVQAKQGADLHTPMLNQMLVHELLKE--GFSERLERVRRVYREKAQAMLHALDREV 312
-----------EEEE--HHHHHHHHHHHHHHH----HHHHHHHHHHH--- HHHHHHHHHHHHHHHHHHHHHHHHHH--
-----EEEE-----EEEEEE---- HHHHHHHHHHH---EEE---------------EEEEEE----HHHHHHHHHHHHH
Query: 332 SEYGVAKWTSPTGGYFISVDVVPG-TASRVVELAKEAGIALTGAGSSFPLHNDPNNENIRLAPSLPPVAELEVAMDGFAT 410
Sbjct: 313 PKE--VRYTRPKGGMFVWMELPKGLSAEGLFRRALEENVAFVPGGPFFA--NGGGENTLRLSYATLDREGIAEGVRRLGR 388
--- EE-------EEEEE------HHHHHHHHH---EE-EE------- -----EEEEE-----HHHHHHHHHHHHHH
HHHHHH
Query: 411 CVLMAA 416
Sbjct: 389 ALKGLL 394
HHHHH-
380 residues (90.69%) of query sequence aligned
--> hit 2 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]
secondary structure: 41.79% helical, 14.10% extended, 44.10% loops/other (query: 46.78% 12.89% 40.33%)
SCOP classification:
name SCOP SCOP_stat confidence score homolog hits length seq. align ENE TE13 old CGenergy SIFT2 tma1 tma2 |-------OPTM------| |-------SEQ (global)-------| |-------SEQ (local)-------| |-------TRD (global)-------| |-------TRD (local)-------| |-------TRS (global)-------| |-------TRS (local)-------| |-------TSS (global)-------| |-------TSS (local)-------| |-------TSC (global)-------| |-------TSC (local)-------| |-------PSM (global)-------| |-------PSM (local)-------| |-------SRF (global)-------| |-------SRF (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------| sec. str.
(%) ident. src. all-atom all-atom score all-atom all-atom all-atom all-atom r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy pos. comp.
2EGY_A not_found 70.70.70.24 NONE -111.018 0 1 91.17% 18.67% OPTM -1152.098 -1026.510 7.837 0.557 0.795 0.931 0.967 82.990 -123.1 11.050 266.000 -334.0 11.930 216.000 -348.5 0.320 2.770 -33.6 -0.810 -3.580 -57.8 7.490 41.100 -24.7 8.000 31.760 -64.3 16.830 93.390 -135.8 22.130 75.820 -151.1 -30.000 133.000 -310.0 -30.000 105.000 -311.0 19.250 453.000 -359.0 43.240 321.000 -372.0 16.290 192.000 -334.0 17.710 129.000 -352.0 5.000 -95.7 -0.112 -18.2 0.000 -9.3e+061 5.000 -96.0 0.176 -13.0 0.24 0.88
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
HHHHH--HHHHHHHHHHH----EEE------------HHHHHHHH--HHHH----HHHH--------HHHHHHHHHH---
Query: 9 ARLAQVREEVTAKYAELKAKNLSLDLTRGKPSAEQLDLSNDLLSLPGGDFRTKDGVDCRNYGGLLGIADIRELWAEALGL 88
Sbjct: 12 KGAGRIQASTIRELLKLTQRPGILSFAGGLPAPELFP--KEEAAEAAARILREKGEVALQYSPTEGYAPLRAFVAEWIGV 89
HHH-------------------EE------------H HHHHHHHHHHHHHHHHHHH--------HHHHHHHHHHH---
----EEEE--HHHHHHHHHHHHHHH----------------EEEE----HHHHHHHHHH----EEEE--------HHHHH
Query: 89 PADLVVAQDGSSLNIMFDLISWSYTWGNNDSSRPWSAEEKVKWLCPVPGYDRHFTITEHFGFEMINVPMTDEGPDMGVVR 168
Sbjct: 90 RPEEVLITT--GSQQALDLVGKVFLD------------EGSPVLLEAPSYMGAIQAFRLQGPRFLTVPAGEEGPDLDALE 155
---EEEE-H HHHHHHHHHHHH--- --EEEEEE---HHHHHHHH----EEEEEEEE--EE-HHHHHH
HHHH----EEEEEE------------HHHHHHHHHHHHH----EEEE--HHHH------------HHHHHHH------EE
Query: 169 ELVKDPQVKGMWTVPVFGNPTGVTFSEQTCRELAEMSTAAPDFRIVWDNAYALHTLSDEFPIVHNVIEFAQAAGNPNRFW 248
Sbjct: 156 EVLKRERPRFLYLIPSFQNPTGGLTPLPARKRLLQMVMERG-LVVVEDDAYRELYFGE--ARLPSLFELAREAGYPG-VI 231
HH-------EEE-------------HHHHHHHHHHHHH--- -EEEE----------- ----HHHHHHHH----E EE
EE----HHH----EEEEEE--HHHHHHHHHHHHHH-----HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHH
Query: 249 FMSSTSKITHAGSGVSFFASSKENIEWYASHANVRGIGPNKLNQLAHAQFFGDVAGLKAHMLKHAASLAPKFERVLEILD 328
Sbjct: 232 YLGSFSKVLSPGLRVAFAVAHPEALQKLVQAKQGADLHTPMLNQMLVHELLKE--GFSERLERVRRVYREKAQAMLHALD 309
EEE-----------EEEE--HHHHHHHHHHHHHHH----HHHHHHHHHHH--- HHHHHHHHHHHHHHHHHHHHHHHHH
HHH-----EEEE-----EEEEEE---- HHHHHHHHHHH---EEE---------------EEEEEE----HHHHHHHHHH
Query: 329 SRLSEYGVAKWTSPTGGYFISVDVVPG-TASRVVELAKEAGIALTGAGSSFPLHNDPNNENIRLAPSLPPVAELEVAMDG 407
Sbjct: 310 REVPKE--VRYTRPKGGMFVWMELPKGLSAEGLFRRALEENVAFVPGGPFFA--NGGGENTLRLSYATLDREGIAEGVRR 385
H----- EE-------EEEEE------HHHHHHHHH---EE-EE------- -----EEEEE-----HHHHHHHHHHH
HHHHHHHH
Query: 408 FATCVLMA 415
Sbjct: 386 LGRALKGL 393
HHHHHHH-
382 residues (91.17%) of query sequence aligned
--> hit 3 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]
secondary structure: 40.38% helical, 17.03% extended, 42.58% loops/other (query: 46.78% 12.89% 40.33%)
SCOP classification: [Alpha and beta proteins (a/b)]/[PLP-dependent transferases]
name SCOP SCOP_stat confidence score homolog hits length seq. align ENE TE13 old CGenergy SIFT2 tma1 tma2 |-------OPTM------| |-------SEQ (global)-------| |-------SEQ (local)-------| |-------TRD (global)-------| |-------TRD (local)-------| |-------TRS (global)-------| |-------TRS (local)-------| |-------TSS (global)-------| |-------TSS (local)-------| |-------TSC (global)-------| |-------TSC (local)-------| |-------PSM (global)-------| |-------PSM (local)-------| |-------SRF (global)-------| |-------SRF (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------| sec. str.
(%) ident. src. all-atom all-atom score all-atom all-atom all-atom all-atom r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy pos. comp.
1V2D_A c.67.1.1 224.81.81.31 NONE -111.046 0 1 84.96% 20.00% OPTM -1339.580 -995.170 5.287 0.538 0.736 0.864 0.946 62.490 -101.6 7.480 170.000 -200.5 9.020 97.500 -239.5 1.110 11.950 -13.6 -0.300 -1.020 -55.9 2.520 20.560 31.1 -0.600 -2.750 -32.8 14.430 60.790 -69.6 11.760 30.760 -103.3 -30.000 110.000 -264.0 -30.000 90.000 -273.0 14.870 284.000 -206.0 24.680 163.000 -224.0 9.090 108.000 -195.0 8.830 40.000 -240.0 5.000 -38.5 3.482 -22.4 -107.000 565.0 5.000 -38.7 -0.538 -3.5 0.14 0.79
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
HH--HHHHHHHHHHH----EEE------------HHHHHHHH--HHHH----HHHH--------HHHHHHHHHH------
Query: 12 AQVREEVTAKYAELKAKNLSLDLTRGKPSAEQLDLSNDLLSLPGGDFRTKDGVDCRNYGGLLGIADIRELWAEALGLPAD 91
Sbjct: 9 AAIFPRMSGLAQRLGA----VNLGQGFPSNPPPPFLLEAVRRALG---RQD-----QYAPPAGLPALREALAEEFAVEPE 76
--HHHHHHHHHHH--E E-----------HHHHHHHHHH--- --- -------HHHHHHHHHHH------
-EEEE--HHHHHHHHHHHHHHH----------------EEEE----HHHHHHHHHH---- EEEE------- -HHHH
Query: 92 LVVAQDGSSLNIMFDLISWSYTWGNNDSSRPWSAEEKVKWLCPVPGYDRHFTITEHFGFE--MINVPMTDEGP--DMGVV 167
Sbjct: 77 SVVVTSGATEALYVLLQSLV---GPGD-----------EVVVLEPFFDVYLPDAFLAGAKARLVRLDLTPEGFRLDLSAL 142
EEEE--HHHHHHHHHHHH-- ---E EEEEE-----HHHHHHH---EEEEEE-EEE--EEE--HHHHH
HHHHH----EEEEEE------------HHHHHHHHHHHHH----EEEE--HHHH------------HHHHHHH------E
Query: 168 RELVKDPQVKGMWTVPVFGNPTGVTFSEQTCRELAEMSTAAPDFRIVWDNAYALHTLSDEFPIVHNVIEFAQAAGNPNRF 247
Sbjct: 143 EKAL-TPRTRALLLNTPM-NPTGLVFGERELEAIARLARAH-DLFLISDEVYDELYYGERP---RRLREFA-----PERT 211
---- --EEEEEEE---- -------HHHHHHHHHHHHH-- -EEEEE------------- -HHHH-- --EE
EEE----HHH-- --EEEEEE--HHHHHHHHHHHHHH-----HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHH
Query: 248 WFMSSTSKITHA-GSGVSFFASSKENIEWYASHANVRGIGPNKLNQLAHAQFFGDVAGLKAHMLKHAASLAPKFERVLEI 326
Sbjct: 212 FTVGSAGKRLEATGYRVGWIVGPKEFMPRLAGMRQWTSFSAPTPLQAGVAEALKL---ARREGF--YEALREGYRRRRDL 286
EEEEHHHH--------EEEE-----HHHHHHHHHHH-----HHHHHHHHHHHHHH HH--HH HHHHHHHHHHHHHH
HHHHH-----EEEE-----EEEEEE----HHHHHHHHHHH---EEE---------------EEEEEE----HHHHHHHHH
Query: 327 LDSRLSEYGVAKWTSPTGGYFISVDVVPGTASRVVELAKEAGIALTGAGSSFPLHNDPNNENIRLAPSLPPVAELEVAMD 406
Sbjct: 287 LAGGLRAMGL-RVYVPEGTYFLMAELPGWDAFRLVEEAR---VALIPASAFY--LEDPPKDLFRFAFC-KTEEELHLALE 359
HHHHHH---- EE------EEEEE-----HHHHHHH--E E-EE------ ------EEEEE--- -HHHHHHHHHH
HHHHH
Query: 407 GFATC 411
Sbjct: 360 RLGRV 364
HHHH-
356 residues (84.96%) of query sequence aligned
--> hit 4 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]
secondary structure: 42.59% helical, 14.56% extended, 42.86% loops/other (query: 46.78% 12.89% 40.33%)
SCOP classification:
name SCOP SCOP_stat confidence score homolog hits length seq. align ENE TE13 old CGenergy SIFT2 tma1 tma2 |-------OPTM------| |-------SEQ (global)-------| |-------SEQ (local)-------| |-------TRD (global)-------| |-------TRD (local)-------| |-------TRS (global)-------| |-------TRS (local)-------| |-------TSS (global)-------| |-------TSS (local)-------| |-------TSC (global)-------| |-------TSC (local)-------| |-------PSM (global)-------| |-------PSM (local)-------| |-------SRF (global)-------| |-------SRF (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------| sec. str.
(%) ident. src. all-atom all-atom score all-atom all-atom all-atom all-atom r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy pos. comp.
2DOU_A not_found 70.70.70.24 NONE -111.122 0 1 87.35% 16.96% OPTM -1174.708 -974.720 4.898 0.518 0.638 0.877 0.945 58.060 -96.0 2.620 44.000 -93.5 1.250 34.500 -144.0 0.530 -1.570 -16.3 -0.230 -4.360 -69.1 1.740 -4.700 31.1 1.170 9.400 -37.3 11.640 28.380 -75.5 12.810 29.550 -112.9 -30.000 96.000 -270.0 -30.000 91.000 -279.0 9.880 230.500 -134.0 25.470 166.000 -209.0 9.210 105.000 -249.0 9.630 49.000 -271.0 5.000 -25.3 1.522 -20.3 0.000 -9.3e+061 5.000 -25.3 0.255 -0.3 0.17 0.88
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
HHHH--HHHHHHHHHHH----EEE------------HHHHHHHH--HHHH--- -HHHH--------HHHHHHHHHH--
Query: 10 RLAQVREEVTAKYAELKAKNLSLDLTRGKPSAEQLDLSNDLLSLPGGDFRTKD--GVDCRNYGGLLGIADIRELWAEALG 87
Sbjct: 8 SVFLVVDEAKRKARERGVGL--IDLSIGSTDLPPPEAPLKALAEALNDPTTYGYCLKSCT----LPFLEEAARWYEGRYG 81
HHHHHHHHHHHHHH-----E E-----------HHHHHHHHHH-----------HHHHH HHHHHHHHHHHHHH--
----- EEEE--HHHHHHHHHHHHHHH----------------EEEE----HHHHHHHHHH----EEEE------
Query: 88 LPADL---VVAQDGSSLNIMFDLISWSYTWGNNDSSRPWSAEEKVKWLCPVPGYDRHFTITEHFGFEMINVPMTDEG--- 161
Sbjct: 82 VGLDPRREALALIGSQEGLAHLLLALT--------------EPEDLLLLPEVAYPSYFGAARVASLRTFLIPLREDGLAD 147
-------EEEE--HHHHHHHHHHHH-- ---EEEEE----HHHHHHHHH---EEEEE----------
--HHHHHHHHH----EEEEEE------------HHHHHHHHHHHHH----EEEE--HHHH------------HHHHH
Query: 162 ---PDMGVVRELVKDPQVKGMWTVPVFGNPTGVTFSEQTCRELAEMSTAAPDFRIVWDNAYALHTLSDEFPIVHNVIEFA 238
Sbjct: 148 LKAVPEGVWRE-------AKVLLLNYPNNPTGAVADWGYFEEALGLARKHG-LWLIHDNPYVDQVYEGEAPSP------L 213
----HHHHHHE EEEEE------------HHHHHHHHHHHHH--- EEEEE---------------- -
HH------EEEE----HHH-- --EEEEEE--HHHHHHHHHHHHHH-----HHHHHHHHHHHHH--HHHHHHHHHHHHHH
Query: 239 QAAGNPNRFWFMSSTSKITHA-GSGVSFFASSKENIEWYASHANVRGIGPNKLNQLAHAQFFGDVAGLKAHMLKHAASLA 317
Sbjct: 214 ALPGAKERVVELFSLSKSYNLAGFRLGFALGSEEALARLERVKGVIDFNQYAGVLRMGVEALKTP---KEVVRGYARVYR 290
-------EEEEEEHHHHH-------EEEEE-HHHHHHHHHHHHHH-----HHHHHHHHHHH---H HHHHHHHHHHHH
HHHHHHHHHHHHHH-----EEEE-----EEEEEE---- HHHHHHHHHHH---EEE---------------EEEEEE---
Query: 318 PKFERVLEILDSRLSEYGVAKWTSPTGGYFISVDVVPG-TASRVVELAKEAGIALTGAGSSFPLHNDPNNENIRLAPSLP 396
Sbjct: 291 ERALGMAEALK------GVLSLLPPRATMYLWGRLPEGVDDLEFGLRLVERGVALAPGRGFGPGGKG----FVRIALVR- 359
HHHHHHHHH-- --EE-------EEEEE------HHHHHHHHHH--EE-EE----------E EEEE----
-HHHHHHHHHHHHH
Query: 397 PVAELEVAMDGFAT 410
Sbjct: 360 PLEELLEAAKRIRE 373
HHHHHHHHHHHHH-
366 residues (87.35%) of query sequence aligned
--> hit 5 [All-atom model (PDB)] [view all-atom model (PDB) with Chime] [PIR alignment file] [PDB file (backbone only)] [view PDB file (backbone only) with Chime] [hit list]
secondary structure: 43.53% helical, 15.17% extended, 41.29% loops/other (query: 46.78% 12.89% 40.33%)
SCOP classification: [Alpha and beta proteins (a/b)]/[PLP-dependent transferases]
name SCOP SCOP_stat confidence score homolog hits length seq. align ENE TE13 old CGenergy SIFT2 tma1 tma2 |-------OPTM------| |-------SEQ (global)-------| |-------SEQ (local)-------| |-------TRD (global)-------| |-------TRD (local)-------| |-------TRS (global)-------| |-------TRS (local)-------| |-------TSS (global)-------| |-------TSS (local)-------| |-------TSC (global)-------| |-------TSC (local)-------| |-------PSM (global)-------| |-------PSM (local)-------| |-------SRF (global)-------| |-------SRF (local)-------| |-------TBLS------| |-------KMER------| |-------CFTR------| |-------TBSS------| |-------SBLS------| sec. str.
(%) ident. src. all-atom all-atom score all-atom all-atom all-atom all-atom r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy zscore r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy r-energy energy pos. comp.
1X0M_A c.67.1.1 224.81.81.31 NONE -111.217 0 1 95.47% 20.38% OPTM -1193.115 -910.630 7.811 0.512 0.727 0.922 0.954 88.360 -127.8 12.240 280.500 -365.5 16.460 232.000 -383.5 3.340 16.030 -58.5 1.700 2.400 -77.5 7.710 39.870 -39.5 0.660 0.710 -61.5 20.080 92.880 -152.7 21.010 75.950 -155.5 -30.000 134.000 -311.0 -30.000 110.000 -314.0 18.360 458.000 -339.0 46.520 288.000 -343.0 16.640 200.000 -326.0 18.880 133.000 -339.0 5.000 -1.0 -0.566 -15.0 0.000 -9.3e+061 5.000 -1.0 -1.921 -17.5 0.81 0.89
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
--HHHH-HHHHHH--HHHHHHHHHHH----EEE------------HHHHHHHH--HHHH----HHHH--------HHHHH
Query: 1 MSLKDYDAARLAQVREEVTAKYAELKAKNLSLDLTRGKPSAEQLDLSNDLLSLPGGDFRTKDGVDCRNYGGLLGIADIRE 80
Sbjct: 28 GDVERFFSKKALEMRASEVRELLKLVETSDIISLAGGLPNPKTFP--KEIIRDILVEIMEKYADKALQYGTTKGFTPLRE 105
-------HHHH-----HHHHHHHHH-----EE------------H HHHHHHHHHHHHH-HHHHH--------HHHHHH
HHHHH- ----- -EEEE--HHHHHHHHHHHHHHH----------------EEEE----HHHHHHHHHH----EEEE
Query: 81 LWAEAL----GLPAD-LVVAQDGSSLNIMFDLISWSYTWGNNDSSRPWSAEEKVKWLCPVPGYDRHFTITEHFGFEMINV 155
Sbjct: 106 TLMKWLGKRYGISQDNDIMITSGS--QQALDLIGRVFLNPGD------------IVVVEAPTYLAALQAFNFYEPQYIQI 171
HHHHHHHHH------EEEEE--HH HHHHHHHHHH-----E EEEEE---HHHHHHHH----EEEEEE
--------HHHHHHHHH- ---EEEEEE------------HHHHHHHHHHHHH----EEEE--HHHH---------
Query: 156 PMTDEGPDMGVVRELVKD-----PQVKGMWTVPVFGNPTGVTFSEQTCRELAEMSTAAPDFRIVWDNAYALHTLSDEFPI 230
Sbjct: 172 PLDDEGMKVEILEEKLKELKSQGKKVKVVYTVPTFQNPAGVTMNEDRRKYLLELASEY-DFIVVEDDPYGELRYSGNPEK 250
EE--EE-HHHHHHHHHHHH-----EEEEEE-------------HHHHHHHHHHHHH-- -EEEEE---------------
---HHHHHHH------EEEE----HHH----EEEEEE--HHHHHHHHHHHHHH-----HHHHHHHHHHHHH--HHHHHHH
Query: 231 VHNVIEFAQAAGNPNRFWFMSSTSKITHAGSGVSFFASSKENIEWYASHANVRGIGPNKLNQLAHAQFFGDVAGLKAHML 310
Sbjct: 251 K------IKALDNEGRVIYLGTFSKILAPGFRIGWMVGDPGIIRKMEIAKQSTDLCTNVFGQVVAWRYVDGG-YLEKHIP 323
- --------EEEEEE-----------EEEEE-HHHHHHHHHHHHHH-----HHHHHHHHHHHH--H HHHHHHH
HHHHHHHHHHHHHHHHHHHHH-----EEEE-----EEEEEE---- HHHHHHHHHHH---EEE---------------EE
Query: 311 KHAASLAPKFERVLEILDSRLSEYGVAKWTSPTGGYFISVDVVPG-TASRVVELAKEAGIALTGAGSSFPLHNDPNNENI 389
Sbjct: 324 EIRKFYKPRRDAMLEALEEFMPEG--VKWTKPEGGMFIWVTLPDGIDSKKMLERAIKKGVAYVPGEAFY-AHRDVKN-TM 399
HHHHHHHHHHHHHHHHHHH----- EE-------EEEEE------HHHHHHHHHH--EE-EE------ ------E EE
EEEE----HHHHHHHHHHHHHHHHHHHH
Query: 390 RLAPSLPPVAELEVAMDGFATCVLMAAL 417
Sbjct: 400 RLNFTYVDEDKIMEGIKRLAETIKEELK 427
EE-----HHHHHHHHHHHHHHHHHHHH-
400 residues (95.47%) of query sequence aligned
DONE: Sat Aug 16 01:56:58 2008 EST