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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
PRPNEECLQILGNAEKGAKFLSDAEIIQLVNAKHIPAYKLETLIETHERGVSIRRQLLSKKLSEPSSLQYLPYRDYNYSL
VMGACCENVIGYMPIPVGVAGPLCLDEKEFQVPMATTEGCLVASTNRGCRAIGLGGGASSRVLADGMTRGPVVRLPRACD
SAEVKAWLETSEGFAVIKEAFDSTSRFARLQKLHTSIAGRNLYIRFQSRSGDAMGMNMISKGTEKALSKLHEYFPEMQIL
AVSGNYCTDKKPAAINWIEGRGKSVVCEAVIPAKVVREVLKTTTEAMIEVNINKNLVGSAMAGSIGGYNAHAANIVTAIY
IACGQDAAQNVGSSNCITLMEASGPTNEDLYISCTMPSIEIGTVGGGTNLLPQQACLQMLGVQGACKDNPGENARQLARI
VCGTVMAGELSLMAALAAGHLV

The query sequence (length=422) 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 3cd5:A 425 422 1.0000 0.9929 1.0000 0.0 3bgl:A, 3bgl:B, 3bgl:C, 3bgl:D, 3cct:A, 3cct:B, 3cct:C, 3cct:D, 3ccw:A, 3ccw:B, 3ccw:C, 3ccw:D, 3ccz:A, 3ccz:B, 3ccz:C, 3ccz:D, 3cd0:A, 3cd0:B, 3cd0:C, 3cd0:D, 3cd5:B, 3cd5:C, 3cd5:D, 3cd7:A, 3cd7:B, 3cd7:C, 3cd7:D, 3cda:A, 3cda:B, 3cda:C, 3cda:D, 3cdb:A, 3cdb:B, 3cdb:C, 3cdb:D, 1dq8:A, 1dq8:B, 1dq8:C, 1dq8:D, 1dq9:A, 1dq9:B, 1dq9:C, 1dq9:D, 1dqa:A, 1dqa:B, 1dqa:C, 1dqa:D, 1hw8:A, 1hw8:B, 1hw8:C, 1hw8:D, 1hw9:A, 1hw9:B, 1hw9:C, 1hw9:D, 1hwi:A, 1hwi:B, 1hwi:C, 1hwi:D, 1hwj:A, 1hwj:B, 1hwj:C, 1hwj:D, 1hwk:A, 1hwk:B, 1hwk:C, 1hwk:D, 1hwl:A, 1hwl:B, 1hwl:C, 1hwl:D, 2q1l:A, 2q1l:B, 2q1l:C, 2q1l:D, 2q6b:A, 2q6b:B, 2q6b:C, 2q6b:D, 2q6c:A, 2q6c:B, 2q6c:C, 2q6c:D, 2r4f:A, 2r4f:B, 2r4f:C, 2r4f:D
2 8ecg:A 357 372 0.5071 0.5994 0.5753 4.87e-152
3 6hr8:A 397 406 0.4076 0.4332 0.4236 1.61e-99 6hr8:B, 6hr8:C, 6hr8:D, 6hr8:E, 6hr8:F
4 7m1z:B 425 366 0.2156 0.2141 0.2486 2.58e-10 7m1z:A, 7m1z:C, 7m1z:D, 7m3h:A, 7m3h:B, 7m66:A, 7m66:C, 7m66:B, 7m66:D
5 5wpk:B 422 173 0.0972 0.0972 0.2370 2.36e-04 5wpj:A, 5wpk:A
6 6dio:C 428 41 0.0379 0.0374 0.3902 0.065 6dio:A, 6dio:B, 6eev:A
7 6p7k:A 375 41 0.0355 0.0400 0.3659 0.093
8 5k6o:A 795 80 0.0498 0.0264 0.2625 1.6 5k6m:A, 5k6n:A
9 1qax:A 425 55 0.0355 0.0353 0.2727 4.2 8gdn:A, 8gdn:B, 4i4b:A, 4i4b:B, 4i56:A, 4i56:B, 4i6a:A, 4i6a:B, 4i6w:A, 4i6w:B, 4i6y:A, 4i6y:B, 1qax:B, 1qay:A, 1qay:B, 1r31:A, 1r31:B, 8sz6:A, 8sz6:B, 1t02:A, 8vlq:A, 8vlq:B
10 3rit:A 354 66 0.0450 0.0537 0.2879 5.3 3rit:B, 3rit:C, 3rit:D, 3rit:E, 3ro6:B, 3ro6:A, 3ro6:C, 3ro6:D, 3ro6:E, 3ro6:F
11 6k8n:A 668 77 0.0355 0.0225 0.1948 7.7 6k8n:B, 6k8n:C, 6k8n:D, 6k8o:A

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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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