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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
HLLSLTRRAQKHRLRELKIQVKEFADKEEGGDVKAVCLTLFLLALRARNEHRQADELEAIMQGRGSGLQPAVCLAIRVNT
FLSCSQYHKMYRTVKAITGRQIFQPLHALRNAEKVLLPGYHPFEWQPPLKNVSSRTDVGIIDGLSGLASSVDEYPVDTIA
KRFRYDSALVSALMDMEEDILEGMRSQDLDDYLNGPFTVVVKESCDGMGDVSEKHGSGPAVPEKAVRFSFTVMRITIEHG
SQNVKVFEEPKPNSELCCKPLCLMLADESDHETLTAILSPLIAEREAMKSSELTLEMGGIPRTFKFIFRGTGYDEKLVRE
VEGLEASGSVYICTLCDTTRLEASQNLVFHSITRSHAENLQRYEVWRSNPYHESVEELRDRVKGVSAKPFIETVPSIDAL
HCDIGNAAEFYKIFQLEIGEVYKHPNASKEERKRWQATLDKHLRKRMNLKPIMRMNGNFARKLMTQETVDAVCELIPSEE
RHEALRELMDLYLKMKPVWRSSCPAKECPESLCQYSFNSQRFAELLSTKFKYRYEGKITNYFHKTLAHVPEIIERDGSIG
AWGNQSGNKLFRRFRKMNARQSKCYEMEDVLKHHWLYTSKYLQKFMNAHNA

The query sequence (length=611) 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 6oet:C 623 613 0.9984 0.9791 0.9951 0.0 6cg0:A, 6cg0:C, 6cij:A, 6cij:C, 6cik:A, 6cik:C, 6cil:A, 6cil:C, 6cim:A, 6cim:C, 3gna:A, 3gnb:A, 6oem:A, 6oem:C, 6oen:A, 6oen:C, 6oeo:A, 6oeo:C, 6oep:A, 6oep:C, 6oeq:A, 6oeq:C, 6oer:A, 6oer:C, 6oes:A, 6oes:C, 6oet:A, 6v0v:A, 4wwx:B, 4wwx:E, 6xnx:A, 6xnx:C, 6xny:A, 6xny:C, 6xnz:A, 6xnz:C, 5zdz:A, 5zdz:C, 5ze0:A, 5ze0:C, 5ze1:A, 5ze1:C, 5ze2:A, 5ze2:C
2 6dbi:C 622 615 0.7741 0.7605 0.7691 0.0 6dbi:A, 6dbj:A, 6dbj:C, 6dbl:A, 6dbl:C, 6dbo:A, 6dbo:C, 6dbq:A, 6dbq:C, 6dbr:A, 6dbr:C, 6dbt:A, 6dbt:C, 6dbu:A, 6dbu:C, 6dbv:A, 6dbv:C, 6dbw:A, 6dbw:C, 6dbx:A, 6dbx:C, 3jbw:A, 3jbw:C, 3jbx:A, 3jbx:C, 3jby:A, 3jby:C
3 6b40:A 553 556 0.2995 0.3309 0.3291 1.18e-80 6b40:E
4 5eul:A 746 54 0.0245 0.0201 0.2778 0.66
5 6pqx:A 480 60 0.0327 0.0417 0.3333 1.9 6pqx:E, 6pr5:A, 6pr5:E
6 6pqr:A 468 60 0.0327 0.0427 0.3333 1.9 6pqn:A, 6pqn:B, 6pqr:D, 6pqu:A, 6pqu:E, 6pqy:A, 6pqy:D
7 6r7b:A 454 115 0.0442 0.0595 0.2348 2.5 6r7b:B, 6r7b:C, 6r9r:B, 6r9r:A, 6r9r:C
8 8sij:A 445 41 0.0229 0.0315 0.3415 3.5 8sij:B
9 1m74:A 802 51 0.0245 0.0187 0.2941 3.7 2ibm:A, 6itc:A, 3jv2:A, 3jv2:B, 1tf2:A, 7xha:A, 7xhb:A
10 1f3o:A 232 63 0.0245 0.0647 0.2381 9.0 1l2t:A, 1l2t:B, 3tif:A, 3tif: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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