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:Mon Aug 11 09:10:01 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 T0424
--> 381 residues, sequence name: T0424
Database: T:\CBSU\blastdb\20080108\nr
-> 6 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 | 38 | 5 | 4 | 2 | 0 | 0 | 0 | 2 |
1 | 2 | 3 | 4 | 5 | |
1 | 0.00 | 4.12 | 15.27 | 20.53 | 23.38 |
2 | 4.12 | 0.00 | 15.25 | 20.95 | 23.72 |
3 | 15.27 | 15.25 | 0.00 | 25.50 | 21.92 |
4 | 20.53 | 20.95 | 25.50 | 0.00 | 18.27 |
5 | 23.38 | 23.72 | 21.92 | 18.27 | 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 | 42.77 | 25.22 | 5.00 | 4.71 |
2 | 42.77 | 100.00 | 31.55 | 4.41 | 4.41 |
3 | 25.22 | 31.55 | 100.00 | 4.32 | 4.65 |
4 | 5.00 | 4.41 | 4.32 | 100.00 | 5.97 |
5 | 4.71 | 4.41 | 4.65 | 5.97 | 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 | 50.15 | 11.47 | 14.12 |
2 | 100.00 | 100.00 | 50.00 | 10.00 | 12.35 |
3 | 50.15 | 50.00 | 100.00 | 9.19 | 12.50 |
4 | 11.47 | 10.00 | 9.19 | 100.00 | 11.93 |
5 | 14.12 | 12.35 | 12.50 | 11.93 | 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: 14.51% helical, 42.59% extended, 42.90% loops/other (query: 12.86% 33.07% 54.07%)
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.
1WRU_A not_found 49.49.49.49 NONE -100.724 0 1 85.30% 22.65% OPTM -971.130 -890.390 9.114 0.604 0.718 0.932 0.974 69.780 -111.0 8.260 293.500 -239.5 17.780 284.000 -394.0 -0.540 1.010 18.8 4.360 13.440 -61.9 3.170 22.760 40.2 17.460 38.140 -69.2 8.440 32.990 -36.9 27.440 70.080 -142.2 -30.000 29.000 -202.0 -30.000 58.000 -242.0 33.620 775.000 -696.0 82.800 788.000 -860.0 2.230 40.000 -69.0 7.900 66.000 -181.0 5.000 -94.7 -1.230 -11.2 0.000 -9.3e+061 5.000 -1.0 -2.222 -19.0 0.29 0.78
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
-EEEEEE---EE---EEEEEE--HHHHH---EEEE---------------EEEEEE---EEEEEEEEE---------EEE
Query: 8 YAVSVRVGGKEHRHWERYDIDSDFLIPADSFDFVIGRLGPEAAIPDLSGESCEVVIDGQIVMTGIIGSQRHGKSKGSREL 87
Sbjct: 3 NTVTLRADGRLFTGWTSVSVTRSIESVAGYFELGVNVPPGTDLSGLAPGKKFTLEIGGQIVCTGYIDSRRRQMTADSMKI 82
--EEEEE--EEEE---EEEEEEE------EEEEEEEE-------------EEEEEE--EEEEEEEEEEEEEEE----EEE
EEEE---HHHH-------HHH-- --HHHHHHHHH------EEEEEE-- ------EEEE----HHHHHHHHHHHH
Query: 88 SLSGRDLAGFLVDCSAPQLNVKG-----MTVLDAAKKLAAPWPQIKAVVLKAE-NNPALGKIDIEPGETVWQALTHIANS 161
Sbjct: 83 TVAGRDKTADLIDCAAVY---SGGQWKNRTLEQIARDLCAPYGVTVRWELSDKESSAAFPGFTLDHSETVYEALVRASRA 159
EEEEEE--HHHHH----- ---EEEEE-HHHHHHHHH------EEE----HHHH--EEEEE------HHHHHHHHHH-
---EEEE----EEEEE---------EEEEE-------EEEEEEE-------EEEEEEEEE-------------EEEEE--
Query: 162 VGLHPWLEPDGTLVVGGADYSSPPVATLCWSRTDSRCNIERMDIEWDTDNRFSEVTFLAQSHGRSGDSAKHDLKWVYKDP 241
Sbjct: 160 RGVLMTSNAAGELVFSRA--ASTATDELVLGEN-----LLTLDFEEDFRDRFSEYTVKSR-------------KGTATDS 219
---EEEE-----EEEE-- ---EEEEEE---- EEEEEEEE-------EEEE--- -EEEE--
-------EEEEE-----HHHHHHHHHHHHHHHH----EEEEEE---------E-----EEEEEE------- EEEEEEEE
Query: 242 TMTLHRPKTVVVSDADNLAALQKQAKKQLADWRLEGFTLTITVGGHKTRDGVLWQPGLRVHVIDDEHGIDA-VFFLMGRR 320
Sbjct: 220 DVTRYRPMIIIADSKITAKDAQARALREQRRRLAKSITFEAEIDGWTRKDGQLWMPNLLVTIDASKYAIKTTELLVSKVT 299
------EEEE-------HHHHHHHHHHHHHHHHHHHEEEEEEEE--------------EEEEEE----EE---EEEEEEE
EEE------EEEEEEE-- ---------
Query: 321 FMLSRMDGTQTELRLKED-GIWTPDAYP 347
Sbjct: 300 LILNDQDGLKTRVSLAPREGFLVPVESD 327
EEEE---EEEEEEEEEE-----------
325 residues (85.30%) 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: 12.77% helical, 37.07% extended, 50.16% loops/other (query: 12.86% 33.07% 54.07%)
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.
3CDD_A not_found 49.49.49.49 NONE -101.244 0 1 84.51% 21.18% OPTM -886.050 -767.900 7.154 0.599 0.749 0.867 0.913 53.920 -100.9 6.900 161.000 -221.5 14.220 220.500 -359.5 -0.200 5.420 5.2 1.700 1.840 -57.6 5.300 39.030 18.1 8.360 19.690 -50.8 14.830 55.310 -70.0 16.420 43.340 -119.6 -30.000 28.000 -194.0 -30.000 47.000 -232.0 26.800 568.000 -540.0 67.120 624.000 -688.0 0.550 37.000 -24.0 6.150 44.000 -142.0 5.000 -84.7 -1.293 -12.8 0.000 -9.3e+061 5.000 -87.3 0.204 -12.0 0.32 0.92
alignment source: OPTM
--EEEEEE---EE---EEEEEE--HHHHH---EEEE-- ---------- ---EEEEEE---EEEEEEEEE---
Query: 7 GYAVSVRVGGKEHRHWERYDIDSDFLIPADSFDFVIGR---LGPEAAIPDL-----SGESCEVVIDGQIVMTGIIGSQRH 78
Sbjct: 2 SEEIVLKAGGKIYQGWTKIGITRSLE---ASGAFDLETYKFLGNDAQYKAFIEPIKQGQACTVDIGGERVITGYVDDWVP 78
---EEEEE--EEE-----EEEEEE-- ---EEEE--EE-------------------EEEEEE--EEEEEEEEEEEEE
------EEEEEEE---HHHH----- --HHH----HHHHHHHHH------EEEEEE--------EEEE----HHHHHHH
Query: 79 GKSKGSRELSLSGRDLAGFLVDCSA--PQLNVKGMTVLDAAKKLAAPWPQIKAVVLKAENNPALGKIDIEPGETVWQALT 156
Sbjct: 79 SYDESTITISVSGRDKTADLVDCSIDYPSGQFNNQTLTQIADIVCKPFGI--KVIVNTDVGEPFQRIQIEQGETPHELLA 156
EE---EEEEEEEEEE--HHHHH--------EEEEE-HHHHHHHHH----- -EEE-------EEEEE------HHHHHH
HHHHH---EEEE----EEEEE---------EEEEE-------EEEEEEE-------EEEEEEEEE-------------EE
Query: 157 HIANSVGLHPWLEPDGTLVVGGADYSSPPVATLCWSRTDSRCNIERMDIEWDTDNRFSEVTFLAQSHGRSGDSAKHDLKW 236
Sbjct: 157 RLAKQRGVLLTSDTFGNLVITRASKTKAGV-SLILGDNVK-----AARGRFSWRQRFSKFTIKAA-------------KA 217
HHHH----EEEE-----EEEE--------- -EE------ EEE----------EEEEE-- -E
EEE---------EEEEE-----HHHHHHHHHHHHHHHH----EEEEEE---- -----E-----EEEEEE-------EEE
Query: 237 VYKDPTMTLHRPKTVVVSDADNLAALQKQAKKQLADWRLEGFTLTITVGGHK-TRDGVLWQPGLRVHVIDDEHGIDAVFF 315
Sbjct: 218 DVTDSEIGRYR-PLIIVNEEVTAEGAAKRGQWERQRSIGKS-NAEYTVTGWRIPQTGKLWNINTLVPVIDEI-GLDEELI 294
EEE-------- EEEEE-----HHHHHHHHHHHHHHHHH-- --EEEEE------------------EEE-- -EEE--E
EEEEEEEE------EEEEEEE----------
Query: 316 LMGRRFMLSRMDGTQTELRLKEDGIWTPDAY 346
Sbjct: 295 ASILFSEDD--AGRLAVISVVRPDADIPAQI 323
EEEEEEEE- -EEEEEEEE-----------
322 residues (84.51%) 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: 11.28% helical, 40.95% extended, 47.77% loops/other (query: 12.86% 33.07% 54.07%)
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.
2P5Z_X not_found 49.49.49.49 NONE -103.293 0 1 87.93% 11.86% OPTM -563.158 -608.890 1.854 0.392 0.475 0.795 0.816 16.470 -68.3 2.240 28.000 -106.0 0.010 -32.500 -123.5 0.090 17.190 -27.0 0.900 2.640 -70.3 1.390 22.470 6.8 0.270 -2.540 -36.0 6.140 9.740 -81.3 8.810 6.330 -100.7 -30.000 -9.000 -220.0 -30.000 -8.000 -226.0 3.220 86.000 -2.0 4.640 34.000 -97.0 0.330 37.000 -88.0 3.230 23.000 -146.0 5.000 -3.1 0.726 -14.9 0.000 -9.3e+061 5.000 -4.2 0.114 0.6 0.35 0.81
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
EEEE---E E---EEEEEE--HHHHH---EEEE---------------EEEEEE--- EEEEEEEEE--- ------EEE
Query: 11 SVRVGGKE-HRHWERYDIDSDFLIPADSFDFVIGRLGPEAAIPDLSGESCEVVIDGQ-IVMTGIIGSQRH-GKSKGSREL 87
Sbjct: 16 KLKIRGLQSPVDVLTFEGREQLSTPF-RYDIQFTSSDKAIAPESVLMQDGAFSLTAALRTLHGVITGFKHLSSSQDEARY 94
EEE-------EEEEEEEEEE-----E EEEEEEE-------------EEEEEE----EEEEEEEEEEEEEEE----EEEE
EEEE---HHHH-------HHH----HHHHHHHHH------E EEEEE--------EEEE----HHHHHHHHHHHH---E
Query: 88 SLSGRDLAGFLVDCSAPQLNVKGMTVLDAAKKLAAPWPQIK--AVVLKAENNPALGKIDIEPGETVWQALTHIANSVGLH 165
Sbjct: 95 EVRLEPRMALLTRSRQ-NAIYQNQTVPQIVEKILRERHQMRGQDFVFNLKSEYPAREQVMQYGEDDLTFVSRLLSEVGI- 172
EEEE------------ EEEEEE-HHHHHHHHHH---------EEEE-------EEEEEE----HHHHHHHHHHHH--E
EEE----EEEEE---------EEEEE-------EEEEEEE-------EEEEEEEEE-------------EEEEE------
Query: 166 PWLEPDGTLVVGGADYSSPPVATLCWSRTDSRCNIERMDIEWDTDNRFSEVTFLAQSHGRSGDSAKHDLKWVYKDPTMTL 245
Sbjct: 173 -----------------------WFRFATDARLKIEVIEFYDDQSGYERGLTLPLRT----------EAVWGLNTAYSV- 218
EEEEEE----EEEEEEE------EEEEEE----- -EEEEEEEE---
---EEEEE-----HHHHHHHHHHHHHHHH----EEEEEE---------E-----EEEEEE---- ---EEEEEEEEEEE
Query: 246 HRPKTVVVSDADNLAALQKQAKKQLADWRLEGFTLTITVGGHKTRDGVLWQPGLRVHVIDDEHG--IDAVFFLMGRRFML 323
Sbjct: 219 ---------SGAFYARIRHERYLNEQ------AILKGQSTSSL------LMPGLEIKVQGDDAPAVFRKGVLITGVTTSA 277
---HHHHHHHHHHH--E EEEEEE----- ---EEEEE------HHHHH-EEEEEEEEEEE
------EEEEEEE--- ------------- ------------------------EEEEE
Query: 324 SRMDGTQTELRLKEDG---IWTPDAYPKKAEA------------ARKRKGKRKGVSHKGKKGGKKQAETAVFE 381
Sbjct: 278 ARDRSYELTFTAIPYSERYGYRPALIPRPVMAGTLPARVTSDIYAHIDKDGRYRVNLDFRDTWKPGYESLWVR 350
-----EEEEEEEE--------------------EEEEE-------------EEEE------------EEEE--
335 residues (87.93%) 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: 0.00% helical, 30.30% extended, 69.70% loops/other (query: 12.86% 33.07% 54.07%)
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.
2PM9_A not_found 49.49.49.49 NONE -999.000 0 1 91.86% 14.02% OPTM -283.467 -607.850 0.974 0.389 0.224 0.688 0.699 8.730 -57.0 -0.030 29.000 -36.5 0.040 -5.500 -107.5 1.400 4.980 -32.4 1.550 -0.240 -56.0 1.210 11.130 9.4 0.910 1.800 -30.6 2.560 7.700 -85.3 4.280 1.570 -96.6 -30.000 2.000 -211.0 -30.000 4.000 -216.0 0.770 22.000 58.0 2.610 17.000 -64.0 2.540 28.000 -96.0 1.500 -4.000 -131.0 5.000 0.4 3.021 -15.6 0.000 -9.3e+061 5.000 0.1 -0.201 -0.3 0.58 0.69
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
------EEEEEE---EE---EEEEEE--HHHHH---EEEE--- ------------ EEEEEE---EEEEEE
Query: 3 NNSYGYAVSVRVGGKEHRHWERYDIDSDFLIPADSFDFVIGRL-GPEAAIPDLSGE----SCEVVIDGQIVMTGI----- 72
Sbjct: 17 HDKIPLLVSGTVSGTVDANFST---DS-------SLELWSLLAADSEKPIASLQVDSKFNDLDWSHNNKIIAGALDNGSL 86
----EEEE-------------- -- -EEEE------------------EEEEEE------EEEEE----EE
EEE---------EEEEEEE---HHHH-------HHH----HHHHHHHHH------EEEEEE--------EEEE----HH
Query: 73 -IGSQRHGKSKGSRELSLSGRDLAGFLVDCSAPQLNVKGMTVLDAAKKLAAPWPQIKAVVLKAENNPALGKIDIEPGETV 151
Sbjct: 87 ELYSTNEANNAINSMARFSNHS-------------------------------SSVKTVKFNAKQDN-VLASGGNNGE-- 132
EE----------EEEE------ ---EEEE------- EEEE-----E
HHHHHHHHHH---EEEE---- EEEEE------ ---EEEEE-------EEEE EEE-------EEEEEEE
Query: 152 WQALTHIANSVGLHPWLEPDG-------TLVVGGADYSS-PPVATLCWSRTDSRCNIER----MDIEWDTDNRFSEVTFL 219
Sbjct: 133 ------------IFIWDMNKCTESPSNYTPLTPGQSMSSVDEVISLAWNQSLAHVFASAGSSNFASIWDLKAKKEVIHLS 200
E------------------------------EEEE------EEEEE-----EEEEE----EEEEEE--
EE-------------EEEEE---------EEEEE-----HHHHHHHHHHHHHHHH----EEEEEE---------E----
Query: 220 AQSHGRSGDSAKHDLKWVYKDPTMTLHRPKTVVVSDADNLAALQKQAKKQLADWRLEGFTLTITVGGHKTRDGVLWQPG- 298
Sbjct: 201 YTS---PNSGIKQQLSVVEWHPKNS---TRVATATGSDN-----------------DPSILIWDLRNANTPLQTLNQGHQ 257
--- -------EEEEEE------ EEEEEE----- ----EEE-----------------
-EEEEEE-------EEEEEEE EEEE------EEEEEEE------ --- ------
Query: 299 LRVHVIDDEHGIDAVFFLMGR--RFMLSRMDGTQTELRLKEDGIWT------PDA-------------------YPKKAE 351
Sbjct: 258 KGILSLDWCHQDEHLLLSSGRDNTVLLWNPESAEQLSQFPARGNWCFKTKFAPEAPDLFACASFDNKIEVQTLQNLTNTL 337
-EEEEEE-------EEEEE---EEEEE------EEEEEE--------EEE------EEEE-----EEEEEE---------
-------------------------EEEE
Query: 352 AARKRKGKRKGVSHKGKKGGKKQAETAVF 380
Sbjct: 338 DESKEKPSVFHLQAPTWYGEPSPAAHWAF 366
------------------------EEE--
350 residues (91.86%) 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: 0.00% helical, 53.61% extended, 46.39% loops/other (query: 12.86% 33.07% 54.07%)
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.
2GOP_A not_found 49.49.49.49 NONE -999.000 0 1 77.17% 9.32% OPTM -625.217 -550.780 0.903 0.436 0.220 0.667 0.731 3.130 -53.2 -0.840 -44.500 4.0 -0.430 -11.000 -112.0 -0.160 0.080 2.8 0.510 -7.880 -46.6 0.830 6.290 40.6 2.570 7.870 -36.1 5.700 8.910 -33.2 3.410 1.040 -73.0 -30.000 8.000 -150.0 -30.000 6.000 -164.0 1.520 48.000 30.0 1.880 15.000 -72.0 0.460 29.000 0.0 2.780 8.000 -103.0 5.000 0.3 -0.255 -14.0 0.000 -9.3e+061 5.000 0.3 0.079 0.2 0.71 0.33
alignment source: OPTM
+++ there is a problem with all-atom model, click here for details
--------EEEEEE-- -EE---EEEEEE--HHHHH---EEEE------- --------EEEEEE---EEEEE
Query: 1 MQNNSYGYAVSVRVGG----KEHRHWERYDIDSDFLIPADSFDFVIGRLGPEA-----AIPDLSGESCEVVIDGQIVMTG 71
Sbjct: 36 LKDNKYENTIVIENLKNNARRFIENATMPRISP------DGKKIAFMRANEEKKVSEIWVADLETLSSKKILEAKNIRSL 109
---EEEEEEEEEE-----EEEEE--EEEEE--- --EEEEEEEE----EEEEEEEE----EEEEEEEE-EEEEEE
EEEE---------EEEEEEE---HHHH-------HHH----HHHHHHHHH------EEEEEE--------EEEE----HH
Query: 72 IIGSQRHGKSKGSRELSLSGRDLAGFLVDCSAPQLNVKGMTVLDAAKKLAAPWPQIKAVVLKAENNPALGKIDIEPGETV 151
Sbjct: 110 EWNE-------DSRKLLIVGFKR--------------REV----------PAWEKTTFWIFDTESEEVIEEFEKPRF--- 155
E--- --EEEEEEE--- --- ---EEEEEEEE----EEEEEEEEE---
HHHHHHHHHH---EEEE----EEEEE------- --EEEEE-------EEEEE EE-------EEEEEEEEE------
Query: 152 WQALTHIANSVGLHPWLEPDGTLVVGGADYSSP---PVATLCWSRTDSRCNIERM-DIEWDTDNRFSEVTFLAQSHGRSG 227
Sbjct: 156 -----------SSGIWHRDKIVVNVPHREIIPQYFKFWDIYIWEDGKEEKMFEKVSFYAVDSDGE--RILLYGKPEKKYM 222
EEEEE--EEEEEEE-----------EEEEEEE--EEEEEEEEE-EEEEEE---- EEEEE--------
-------EEEEE--------- EEEEE-----HHHHHHHHHHHHHHHH----EEEEEE---------E-----EE
Query: 228 DSAKHDLKWVYKDPTMTLHRP------KTVVVSDADNLAALQKQAKKQLADWRLEGFTLTITVGGHKTRDGVLWQPGLRV 301
Sbjct: 223 S--EHNKLYIYDGKEVMGILDEVDRGVGQAKIKDG----------------------KVYFTLFEEGSVNLYIWD-GEIK 277
- --EEEEE----EEE-------EEEEEEEE--E EEEEEEE--EEEEEEE-- -EEE
EEEE-------EEEEEEE EEEE------EEEEEEE------------------
Query: 302 HVIDDEHGIDAVFFLMGR---RFMLSRMDGTQTELRLKEDGIWTPDAYPKKAEAAR 354
Sbjct: 278 PIAKGRH----WIMGFDVDEIVVYLKETATRLRELFTWDGEEKQLTDYNDPIFAKL 329
EE----E EEEEEE---EEEEEE------EEEEE---EEE------------L
294 residues (77.17%) of query sequence aligned
DONE: Mon Aug 11 18:05:03 2008 EST