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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
VQPLARDAMAYVLAGGRGSRLKELTDRRAKPAVYFGGKARIIDFALSNALNSGIRRIGVATQYKAHSLIRHLQRGWDFFR
PERNESFDILPARTQWYEGTADAVYQNIDIIEPYAPEYMVILAGDHIYKMDYEYMLQQHVDSGADVTIGCLEVPRMEATG
FGVMHVNEKDEIIDFIEKPADPPGIPGNEGFALASMGIYVFHTKFLMEALRRDAADPTSSRDFGKDIIPYIVEHGKAVAH
RFADSCVRSDFEHEPYWRDVGTIDAYWQANIDLTDVVPDLDIYDKSWPIWTYAEITPPAKFVHDDEDRRGSAVSSVVSGD
CIISGAALNRSLLFTGVRANSYSRLENAVVLPSVKIGRHAQLSNVVIDHGVVIPEGLIVGEDPELDAKRFRRTESGICLI
TQSMIDKLDL

The query sequence (length=410) 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 5w5r:A 415 412 0.9951 0.9831 0.9903 0.0 3brk:X, 5w5r:P, 5w5r:D, 5w5r:M, 5w5r:E, 5w5r:H, 5w5r:G, 5w5r:C, 5w5r:I, 5w5r:J, 5w5r:B, 5w5r:K, 5w5r:Q, 5w5r:F, 5w5r:T, 5w5r:U, 5w5t:A, 5w5t:B, 5w5t:C, 5w5t:D, 5w5t:E, 5w5t:F, 5w5t:G, 5w5t:H, 5w5t:I, 5w5t:J, 5w5t:K, 5w5t:L, 5w5t:M, 5w5t:N, 5w5t:O, 5w5t:P, 5w5t:Q, 5w5t:R, 5w5t:Z, 5w5t:T
2 6r8u:A 425 410 0.5732 0.5529 0.5732 4.29e-175 5l6s:C, 5l6s:G, 5l6s:I, 5l6s:L, 5l6v:A, 5l6v:E, 5l6v:G, 5l6v:H, 5l6v:J, 5l6v:K, 5l6v:N, 5l6v:B, 5l6v:C, 5l6v:D, 5l6v:F, 5l6v:L, 5l6v:M, 5l6v:O, 5l6v:P, 6r8b:D, 6r8b:B, 6r8b:A, 6r8b:C, 6r8u:B, 6r8u:D, 6r8u:C, 6shj:D, 6shj:A, 6shj:B, 6shj:C, 6shn:D, 6shn:C, 6shq:A, 6shq:D, 6shq:C, 6shq:B, 6si8:A, 6si8:B, 6si8:D, 6si8:C
3 5l6v:I 400 405 0.5561 0.5700 0.5630 2.17e-163
4 1yp3:C 435 419 0.3366 0.3172 0.3294 3.68e-56 1yp2:A, 1yp2:B, 1yp2:C, 1yp2:D, 1yp3:A, 1yp3:B, 1yp3:D, 1yp4:A, 1yp4:B, 1yp4:C
5 7d72:K 360 365 0.2073 0.2361 0.2329 2.39e-08 7d72:I, 7d72:E, 7d72:F, 7d72:G, 7d72:H, 7d72:J, 7d72:L, 7d73:E, 7d73:F, 7d73:G, 7d73:I, 7d73:J, 7d73:K, 7d73:L, 7d73:H, 7d74:E, 7d74:F, 7d74:G, 7d74:H, 7d74:I, 7d74:J, 7d74:K, 7d74:L
6 6jq8:A 225 259 0.1537 0.2800 0.2432 1.23e-06
7 7whs:A 366 372 0.2073 0.2322 0.2285 3.84e-06 7whs:B, 7whs:C, 7whs:D, 7whs:E, 7whs:F, 7wht:A, 7wht:B, 7wht:C, 7wht:D, 7wht:E, 7wht:F
8 7x8k:B 367 369 0.2122 0.2371 0.2358 8.54e-06 7x8k:A, 7x8k:D
9 3hl3:A 246 201 0.1244 0.2073 0.2537 0.013 4ecm:A
10 6pd2:C 616 119 0.0756 0.0503 0.2605 0.038 6pd1:A, 6pd1:B, 6pd1:D, 6pd2:A, 6pd2:B, 6pd2:D
11 2ggq:A 401 256 0.1415 0.1446 0.2266 0.054 5z09:A, 5z09:B, 5z09:C, 5z09:D
12 1wvc:A 254 86 0.0585 0.0945 0.2791 0.25 1tzf:A
13 4ho9:A 294 263 0.1341 0.1871 0.2091 0.34 4ho3:A, 4ho4:A, 4ho5:A, 4ho5:B, 4ho6:A, 4ho8:A, 4ho8:B, 4ho8:C, 4ho8:D, 4ho9:B, 4hoc:A, 4hoc:B
14 1hm8:A 458 350 0.1732 0.1550 0.2029 0.52 4aaw:A, 4ac3:A, 1g97:A, 1hm8:B, 1hm9:A, 1hm9:B, 7kr9:A
15 4y7u:A 224 69 0.0463 0.0848 0.2754 0.91 4y7v:A
16 7pds:A 457 27 0.0317 0.0284 0.4815 2.7 7pds:B, 7pds:C, 7pds:D, 7pds:E, 7pds:F
17 7aqq:z 233 169 0.0927 0.1631 0.2249 4.0 7a23:q, 7a23:p, 7a24:q, 7a24:p, 7ar7:z, 7ar8:z, 7arb:z, 8bef:z, 8bpx:z, 8bq5:z, 8bq6:z
18 4gwi:A 144 62 0.0439 0.1250 0.2903 4.4 4gwj:A, 3le0:A, 3leg:A, 3lei:A, 3lek:A
19 1lvw:A 295 187 0.1195 0.1661 0.2620 6.1 1lvw:B, 1lvw:C, 1lvw:D
20 2gtl:D 140 60 0.0561 0.1643 0.3833 6.7 2gtl:H, 2gtl:L, 5m3l:D, 5m3l:H, 5m3l:L, 1x9f:D, 1x9f:H, 1x9f:L
21 1h5s:B 291 173 0.1024 0.1443 0.2428 6.8 1h5r:A, 1h5r:B, 1h5r:C, 1h5r:D, 1h5s:A, 1h5s:D, 1h5s:C, 1h5t:A, 1h5t:D, 1h5t:B, 1h5t:C, 1iim:A, 1iim:B, 1iin:A, 1iin:B, 1iin:C, 1iin:D, 1mp3:A, 1mp3:B, 1mp4:A, 1mp4:B, 1mp5:A, 1mp5:B, 1mp5:C, 1mp5:D, 3pkp:A, 3pkp:B, 3pkp:C, 3pkp:D, 3pkp:I, 3pkp:J, 3pkp:K, 3pkp:L, 3pkq:A, 3pkq:B, 3pkq:C, 3pkq:D
22 6jly:E 414 60 0.0390 0.0386 0.2667 9.1 6jly:F, 6jlz:E, 6jlz:F

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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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