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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
NLSAKVVQGSLDSLPQAVREFLENNAELCQPDHIHICDGSEEENGRLLGQMEEEGILRRLKKYDNCWLALTDPRDVARIE
SKTVIVTQEQRDTVPIPKTGLSQLGRWMSEEDFEKAFNARFPGCMKGRTMYVIPFSMGPLGSPLSKIGIELTDSPYVVAS
MRIMTRMGTPVLEALGDGEFVKCLHSVGCPLPLQKPLVNNWPCNPELTLIAHLPDRREIISFGSGYGGNSLLGKKCFALR
MASRLAKEEGWLAEHMLVLGITNPEGEKKYLAAAFPSACGKTNLAMMNPSLPGWKVECVGDDIAWMKFDAQGHLRAINPE
NGFFGVAPGTSVKTNPNAIKTIQKNTIFTNVAETSDGGVYWEGIDEPLASGVTITSWKNKEWSSEDGEPCAHPNSRFCTP
ASQCPIIDAAWESPEGVPIEGIIFGGRRPAGVPLVYEALSWQHGVFVGAAMRSEAKIIMHDPFAMRPFFGYNFGKYLAHW
LSMAQHPAAKLPKIFHVNWFRKDKEGKFLWPGFGENSRVLEWMFNRIDGTKLTPIGYIPKEDALNLKGLGHINMMELFSI
SKEFWDKEVEDIEKYLVDQVNADLPCEIEREILALKQRISQM

The query sequence (length=602) 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 3dt7:A 624 613 0.9070 0.8750 0.8907 0.0 3dt2:A, 3dt4:A, 3dt4:C, 3dt7:B, 3dtb:A, 3dtb:B, 5fh0:A, 5fh1:A, 5fh2:A, 5fh3:A, 5fh4:A, 5fh5:A, 2gmv:A, 2gmv:B, 4gmm:A, 4gmu:A, 4gmw:A, 4gmz:A, 4gnl:A, 4gnm:A, 4gno:A, 4gnp:A, 4gnq:A, 1khb:A, 1khe:A, 1khf:A, 1khg:A, 7l36:A, 7l3m:A, 7l3v:A, 1m51:A, 3moe:A, 3mof:A, 3mof:B, 3moh:A, 3moh:B, 1nhx:A, 4ox2:A, 4ox2:B, 6p5o:A, 2qew:A, 2qey:A, 2qf1:A, 2qf2:A, 2qf2:B, 2rk7:A, 2rk7:B, 2rk8:A, 2rk8:B, 2rka:A, 2rka:C, 2rkd:A, 2rke:A, 5v97:A, 5v9f:A, 5v9g:A, 5v9h:A, 5v9h:B, 4yw8:A, 4yw9:A, 4ywb:A, 4ywb:C, 4ywd:A
2 5v95:A 592 605 0.8904 0.9054 0.8860 0.0
3 2fah:C 608 606 0.6279 0.6217 0.6238 0.0 2faf:A, 2faf:B, 2fah:D, 2fah:A, 2fah:B, 2qzy:A, 2qzy:B
4 4r43:A 601 612 0.5166 0.5175 0.5082 0.0 5i67:A, 4rcg:A, 4wie:A, 4wiu:A, 4wl8:A, 4wou:A, 4wpt:A, 4wpu:A, 4wpv:A
5 3gwg:A 123 80 0.0382 0.1870 0.2875 1.5 3h1e:A, 3h1g:A
6 6c6q:F 113 36 0.0266 0.1416 0.4444 2.6 6c6q:D, 6c74:A, 6e47:F, 6e47:G, 6e48:G, 6e48:F
7 2why:A 283 60 0.0299 0.0636 0.3000 3.5 2xuz:A, 2xv1:A
8 6sga:Fc 84 64 0.0332 0.2381 0.3125 6.3 6sgb:Fc, 6yxy:EK
9 5u7w:A 404 28 0.0216 0.0322 0.4643 7.5 5u7v:A
10 7ahr:B 287 40 0.0282 0.0592 0.4250 8.0 7ahr:A, 7an5:A, 7an5:B, 7an6:A, 7an6:B, 7an7:A, 7an7:B, 7an8:A, 7an8:B, 7an9:A, 7an9:B, 7ywc:A, 7ywc:B

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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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