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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
ATGGYVQQATGQASFTMYSGCGSPACGKAASGFTAAINQLAFGSAPGLGAGDACGRCFALTGNHDPYSPNYTGPFGQTIV
VKVTDLCPVQGNQEFCGQTTSNPTNQHGMPFHFNICEDTGGSAKFFPSGHGALTGTFTEVSCSQWSGSDGGQLWNGACLS
GETAPNWPSTACGNKGTAPS

The query sequence (length=180) 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 5kjq:A 180 180 0.9944 0.9944 0.9944 1.80e-129 3x2g:A, 3x2h:A, 3x2i:A, 3x2k:A, 3x2l:A, 3x2m:A, 3x2p:A
2 5xbx:A 179 78 0.1500 0.1508 0.3462 3.81e-05 5xc4:A, 5xc8:A, 5xc9:A, 5xca:A
3 7r7j:B 574 45 0.1000 0.0314 0.4000 0.93 8h5y:B, 8h5y:A, 8h5z:B, 8h5z:A, 6jde:B, 6jde:A, 7r7j:A
4 3qgu:A 406 41 0.0667 0.0296 0.2927 3.9
5 8xme:A 1176 42 0.0833 0.0128 0.3571 5.1 7eu0:A, 8xmb:A, 8xmc:A, 8xmd:A
6 7eu1:A 1065 42 0.0833 0.0141 0.3571 5.2
7 2y7h:B 529 52 0.0778 0.0265 0.2692 8.1 2y7h:C
8 7qep:D5 87 18 0.0500 0.1034 0.5000 8.3
9 1e9x:A 449 106 0.1444 0.0579 0.2453 8.9 2bz9:A, 2bz9:B, 1ea1:A, 1h5z:A, 1u13:A, 2vku:A, 2w0b:A, 1x8v:A
10 5j55:A 480 27 0.0667 0.0250 0.4444 9.1 5j53:A, 5j54:A, 7qr6:A, 7qr6:B, 7qr6:C
11 1n4p:B 346 44 0.0944 0.0491 0.3864 9.6 1n4p:D, 1n4p:F, 1n4p:H, 1n4p:J, 1n4p:L, 1n4q:B, 1n4q:D, 1n4q:F, 1n4q:H, 1n4q:J, 1n4q:L, 1n4r:B, 1n4r:D, 1n4r:F, 1n4r:H, 1n4r:J, 1n4r:L, 1n4s:B, 1n4s:D, 1n4s:F, 1n4s:H, 1n4s:L, 1n4s:J, 8rdx:B, 8rdx:D, 8rdx:F, 8rdx:H, 8rdx:J, 8rdx:L, 1s64:B, 1s64:D, 1s64:F, 1s64:H, 1s64:J, 1s64:L, 1tnb:B, 1tnb:D, 1tnb:F, 1tnb:H, 1tnb:J, 1tnb:L, 1tno:B, 1tno:D, 1tno:F, 1tno:H, 1tno:J, 1tno:L, 1tnu:B, 1tnu:D, 1tnu:F, 1tnu:H, 1tnu:J, 1tnu:L, 1tny:B, 1tny:D, 1tny:F, 1tny:H, 1tny:J, 1tny:L, 1tnz:B, 1tnz:D, 1tnz:F, 1tnz:H, 1tnz:J, 1tnz:L
12 4xdd:A 582 46 0.0833 0.0258 0.3261 9.9 8aio:A, 8aio:B, 8aj6:A, 8aj6:B, 8aln:A, 8aln:B, 8ap2:A, 8ap2:B, 5byq:A, 5byq:B, 5byr:A, 5byr:B, 5bys:A, 5bys:B, 1c4a:A, 1c4c:A, 3c8y:A, 8cjy:A, 8cjy:B, 1feh:A, 6gly:A, 6gly:B, 6glz:A, 6glz:B, 6gm0:A, 6gm0:B, 6gm1:A, 6gm1:B, 6gm2:A, 6gm2:B, 6gm3:A, 6gm3:B, 6gm4:A, 6gm4:B, 6gm8:A, 6gm8:B, 6h63:A, 6h63:B, 5la3:A, 5la3:B, 6n59:A, 6n6p:A, 6nac:A, 5oef:A, 5oef:B, 8pvm:A, 8pvm:B, 7qhf:A, 7qhf:B, 8qm3:A, 8qm3:B, 4xdc:A, 4xdc:B, 4xdd:B, 6yf4:A, 6yf4: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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