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I-TASSER I-TASSER-MTD C-I-TASSER CR-I-TASSER QUARK C-QUARK LOMETS MUSTER CEthreader SEGMER DeepFold DeepFoldRNA FoldDesign COFACTOR COACH MetaGO TripletGO IonCom FG-MD ModRefiner REMO DEMO DEMO-EM DMFold SPRING COTH Threpp PEPPI BSpred ANGLOR EDock BSP-SLIM SAXSTER FUpred ThreaDom ThreaDomEx EvoDesign BindProf BindProfX SSIPe GPCR-I-TASSER MAGELLAN ResQ STRUM DAMpred

TM-score TM-align US-align MM-align RNA-align NW-align LS-align EDTSurf MVP MVP-Fit SPICKER HAAD PSSpred 3DRobot MR-REX I-TASSER-MR SVMSEQ NeBcon ResPRE TripletRes DeepPotential WDL-RF ATPbind DockRMSD DeepMSA FASPR EM-Refiner GPU-I-TASSER

BioLiP E. coli GLASS GPCR-HGmod GPCR-RD GPCR-EXP Tara-3D TM-fold DECOYS POTENTIAL RW/RWplus EvoEF HPSF THE-DB ADDRESS Alpaca-Antibody CASP7 CASP8 CASP9 CASP10 CASP11 CASP12 CASP13 CASP14

BioLiP
>protein
TPSLYAPQQSADPKFSRPVADTTRTMTVISEQVIKDQGATNLTDALKNVPGVGAFFADAIYMRGADTSNSIYIDGIRDIG
SVSRDTFNTEQVEVIKGPSGTDYGRSAPTGSINMISKQPRNDSGIDASASIGSAWFRRGTLDVNQVIGDTTAVRLNVMGE
KTHDAGRDKVKNERYGVAPSVAFGLGTANRLYLNYLHVTQHNTPDGGIPTIGLPGYSAPSAGTAALNHSGKVDTHNFYGT
DSDYDDSTTDTATMRFEHDINDNTTIRNTTRWSRVKQDYLMTAIMGGASNITQPTSDVNSWTWSRTANTKDVSNKILTNQ
TNLTSTFYTGSIGHDVSTGVEFTRETQTNYGVNPVTLPAVNIYHPDSSIHPGGLTRNGANANGQTDTFAIYAFDTLQITR
DFELNGGIRLDNYHTEYDSATACGGSGRGAITCPTGVAKGSPVTTVDTAKSGNLMNWKAGALYHLTENGNVYINYAVSQQ
PPPQKANTSEIGTKWQVLDKRLLLTAALFRTDIENEYGKKRVEGYEISVAGNITPAWQVIGGYTQQKATIKPYTPEHAFT
LWSQYQATDDISVGAGARYIGSMHKGSDGAVGTPAFTEGYWVADAKLGYRVNRNLDFQLNVYNLFDTDYVASINKSGYRY
HPGEPRTFLLTANMHF

The query sequence (length=656) is searched through a non-redundant set of database sequences protein_nr.fasta.gz clustered at 90% identity cutoff to identify representative hits. Homologs that belong to the same sequence cluster of the representative hit are listed in the last column of the table.

# Hit Hit
length
Aligned
length
Identity
(normalized by query)
Identity
(normalized by hit)
Identity (normalized
by aligned length)
E-value Homologs
to hit
1 6bpn:A 656 656 1.0000 1.0000 1.0000 0.0
2 6bpm:C 711 711 1.0000 0.9226 0.9226 0.0 6bpm:A
3 5fok:A 656 686 0.3765 0.3765 0.3601 1.50e-123 5fok:B
4 5fp1:A 701 729 0.3277 0.3067 0.2949 8.98e-87
5 6i97:A 763 714 0.2790 0.2398 0.2563 1.73e-39 8b43:A, 6i96:A, 6i97:B, 6i98:A, 6z8a:A
6 3qlb:A 673 674 0.2302 0.2244 0.2240 3.40e-20 3qlb:B
7 1xkw:A 655 237 0.1052 0.1053 0.2911 4.01e-18
8 1xkw:A 655 143 0.0534 0.0534 0.2448 3.35e-05
9 2w16:B 754 247 0.0960 0.0836 0.2551 8.71e-14 2iah:A, 2w6t:B, 2w6u:B, 2w76:B, 2w77:B, 2w78:B, 1xkh:A, 1xkh:B, 1xkh:C
10 2w16:B 754 146 0.0671 0.0584 0.3014 1.26e-06 2iah:A, 2w6t:B, 2w6u:B, 2w76:B, 2w77:B, 2w78:B, 1xkh:A, 1xkh:B, 1xkh:C
11 1fi1:A 707 390 0.1341 0.1245 0.2256 8.30e-13 8a8c:A, 8b14:A, 1by5:A, 4cu4:A, 1fcp:A, 2fcp:A, 2grx:A, 2grx:B, 1qff:A, 1qjq:A, 1qkc:A
12 1fi1:A 707 247 0.1006 0.0934 0.2672 4.57e-10 8a8c:A, 8b14:A, 1by5:A, 4cu4:A, 1fcp:A, 2fcp:A, 2grx:A, 2grx:B, 1qff:A, 1qjq:A, 1qkc:A
13 2guf:A 551 159 0.0716 0.0853 0.2956 6.97e-11 3m8b:A, 1nqe:A, 1nqf:A, 3rgm:A, 3rgn:A
14 2gsk:A 590 172 0.0777 0.0864 0.2965 8.25e-11 3m8d:A, 1nqg:A, 1nqh:A, 1ujw:A
15 6e4v:A 672 237 0.0930 0.0908 0.2574 1.73e-09
16 6e4v:A 672 216 0.0899 0.0878 0.2731 4.67e-09
17 1po0:A 661 249 0.0915 0.0908 0.2410 1.39e-06 1po3:A, 1po3:B
18 1po0:A 661 124 0.0442 0.0439 0.2339 2.8 1po3:A, 1po3:B
19 5fp2:A 499 93 0.0412 0.0541 0.2903 2.66e-04
20 9c4o:A 661 197 0.0808 0.0802 0.2690 4.84e-04 6v81:A
21 9c4o:A 661 166 0.0640 0.0635 0.2530 0.64 6v81:A
22 5fp2:B 538 97 0.0427 0.0520 0.2887 0.001
23 5nc3:A 705 29 0.0213 0.0199 0.4828 0.12 6i2j:A, 5nc4:A, 5nr2:A, 7obw:AAA, 6q5e:A, 6r1f:A, 6y47:A, 6yy5:AAA, 6z2n:AAA, 6z33:AAA
24 6z99:B 658 41 0.0259 0.0258 0.4146 0.12 6fok:A, 6fok:B, 6fom:A, 6fom:B, 6z8q:A, 6z8q:B, 6z8r:A, 6z8r:B, 6z8s:A, 6z8s:B, 6z8t:A, 6z8t:B, 6z8u:A, 6z8u:B, 6z91:A, 6z91:B, 6z99:A, 6z9n:A, 6z9n:B, 6z9n:C, 6z9n:D, 6z9y:A, 6z9y:B, 6z9y:C, 6z9y:D
25 6h7f:A 671 722 0.2317 0.2265 0.2105 0.19 6h7f:B, 6h7f:C, 6h7v:B, 6hcp:A, 6hcp:B, 6hcp:C
26 5fr8:A 707 34 0.0198 0.0184 0.3824 0.46 5fr8:B
27 8pm4:A 604 101 0.0396 0.0430 0.2574 1.4
28 4rdr:A 706 102 0.0457 0.0425 0.2941 7.7
29 4rdt:A 635 90 0.0396 0.0409 0.2889 9.0 4rdt:B
30 4rvw:A 610 90 0.0396 0.0426 0.2889 9.1
31 2hl3:A 76 33 0.0183 0.1579 0.3636 9.8 3e2u:A, 3e2u:D, 3e2u:B, 3e2u:C, 2hqh:A, 2hqh:B, 2hqh:C, 2hqh:D

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Reference:
  • Chengxin Zhang, Xi Zhang, Peter L Freddolino, and Yang Zhang. BioLiP2: an updated structure database for biologically relevent ligand-protein interactions, Nucleic Acids Research, gkad630 (2023).
  • Jianyi Yang, Ambrish Roy, and Yang Zhang. BioLiP: a semi-manually curated database for biologically relevant ligand-protein interactions, Nucleic Acids Research, 41: D1096-D1103 (2013) (download the PDF file).
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