BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy3263
(329 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2DGR|A Chain A, Solution Structure Of The Second Kh Domain In Ring Finger
And Kh Domain Containing Protein 1
Length = 83
Score = 86.7 bits (213), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 43/54 (79%), Positives = 47/54 (87%), Gaps = 1/54 (1%)
Query: 85 HVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGNFPE 138
TI+VRVPY+VVGLVVGPKGATIKRIQ +T+TYIVTP RDKEPVF VTG PE
Sbjct: 9 QTTIQVRVPYRVVGLVVGPKGATIKRIQQRTHTYIVTPGRDKEPVFAVTG-MPE 61
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/63 (46%), Positives = 40/63 (63%), Gaps = 4/63 (6%)
Query: 9 INPFGCKIKALRAKTNTYIKTPVRGEEPVFVVTGRKEDVARAKREILSAADHFSALRASR 68
+ P G IK ++ +T+TYI TP R +EPVF VTG E+V RA+ EI + H + LR+
Sbjct: 25 VGPKGATIKRIQQRTHTYIVTPGRDKEPVFAVTGMPENVDRAREEIEA---HIT-LRSGP 80
Query: 69 KSG 71
SG
Sbjct: 81 SSG 83
>pdb|3T6P|A Chain A, Iap Antagonist-Induced Conformational Change In Ciap1
Promotes E3 Ligase Activation Via Dimerization
Length = 345
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 254 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
R C +C D+EV+ IPCGH C ECA R CP+CR + +R +
Sbjct: 296 RTCKVCMDKEVSVVFIPCGHLVVCQECAPSL----RKCPICRGIIKGTVRTFLS 345
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/54 (38%), Positives = 29/54 (53%), Gaps = 5/54 (9%)
Query: 254 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
R C +C DR V+ +PCGH C+ECA + CP+CR PV +R +
Sbjct: 14 RTCKVCLDRAVSIVFVPCGH-LVCAECAPGL----QLCPICRAPVRSRVRTFLS 62
>pdb|3EB5|A Chain A, Structure Of The Ciap2 Ring Domain
pdb|3EB6|A Chain A, Structure Of The Ciap2 Ring Domain Bound To Ubch5b
Length = 74
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 28/54 (51%), Gaps = 4/54 (7%)
Query: 254 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
R C +C D+EV+ IPCGH C +CA R CP+CR + +R +
Sbjct: 25 RTCKVCMDKEVSIVFIPCGHLVVCKDCAPSL----RKCPICRSTIKGTVRTFLS 74
>pdb|4IC3|A Chain A, Crystal Structure Of The F495l Mutant Xiap Ring Domain
pdb|4IC3|B Chain B, Crystal Structure Of The F495l Mutant Xiap Ring Domain
Length = 74
Score = 42.4 bits (98), Expect = 4e-04, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 25/52 (48%), Gaps = 4/52 (7%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
C +C DR + +PCGH C +CAE CPMC + +I+ +
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKILMS 74
>pdb|2ECG|A Chain A, Solution Structure Of The Ring Domain Of The Baculoviral
Iap Repeat-Containing Protein 4 From Homo Sapiens
Length = 75
Score = 41.6 bits (96), Expect = 6e-04, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
C +C DR + +PCGH C +CAE CPMC + +I +
Sbjct: 28 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIFMS 75
>pdb|4IC2|A Chain A, Crystal Structure Of The Xiap Ring Domain
pdb|4IC2|B Chain B, Crystal Structure Of The Xiap Ring Domain
Length = 74
Score = 41.6 bits (96), Expect = 7e-04, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFN 307
C +C DR + +PCGH C +CAE CPMC + +I +
Sbjct: 27 CKICMDRNIAIVFVPCGHLVTCKQCAEAV----DKCPMCYTVITFKQKIFMS 74
>pdb|2YHN|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHN|B Chain B, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|A Chain A, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|C Chain C, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|E Chain E, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
pdb|2YHO|G Chain G, The Idol-Ube2d Complex Mediates Sterol-Dependent
Degradation Of The Ldl Receptor
Length = 79
Score = 39.7 bits (91), Expect = 0.002, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 4/49 (8%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 304
C +C + E+ PCGH C CA + ++CP+CR V +
Sbjct: 21 CMVCCEEEINSTFCPCGHTVCCESCAAQL----QSCPVCRSRVEHVQHV 65
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 38.5 bits (88), Expect = 0.005, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%), Gaps = 2/47 (4%)
Query: 255 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQA 301
+C +C D ++PC H+F C +C ++ D R CP+CR+ + A
Sbjct: 17 ECCICMDGR-ADLILPCAHSF-CQKCIDKWSDRHRNCPICRLQMTGA 61
>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
Retinoblastoma Binding Protein-6 (Rbbp6)
Length = 92
Score = 34.3 bits (77), Expect = 0.10, Method: Composition-based stats.
Identities = 20/58 (34%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDF---DRTCPMCRVPVNQAMRIIFNQFL 310
C +C D +IPC N +C EC RT + TCP C +I N+FL
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECI-RTALLESDEHTCPTCHQNDVSPDALIANKFL 72
>pdb|2OPU|A Chain A, Solution Nmr Structure Of The First Domain Of Ksrp
Length = 89
Score = 33.5 bits (75), Expect = 0.16, Method: Composition-based stats.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 70 SGALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQT 115
S L P+ PP +T E RVP +VGL++G G I +IQ +
Sbjct: 2 SSQLGPIHPPPRTS--MTEEYRVPDGMVGLIIGRGGEQINKIQQDS 45
>pdb|2EA5|A Chain A, Solution Structure Of The Ring Domain Of The Human Cell
Growth Regulator With Ring Finger Domain 1 Protein
Length = 68
Score = 33.1 bits (74), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 25/51 (49%), Gaps = 4/51 (7%)
Query: 254 RQCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 304
+ C +C + V L+PC H C C + + + CPMCR V ++ +
Sbjct: 16 KDCVVCQNGTVNWVLLPCRHTCLCDGCVK----YFQQCPMCRQFVQESFAL 62
>pdb|3U1K|A Chain A, Crystal Structure Of Human Pnpase
pdb|3U1K|C Chain C, Crystal Structure Of Human Pnpase
pdb|3U1K|B Chain B, Crystal Structure Of Human Pnpase
pdb|3U1K|D Chain D, Crystal Structure Of Human Pnpase
Length = 630
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 43/98 (43%), Gaps = 16/98 (16%)
Query: 36 PVFVVTGRKEDVARAKREILSAADH-FSALRASRKSGALSPLSPPTGVPGHVTIEVRVPY 94
P+ +V + + AK+EIL + S RASRK G V V+VP
Sbjct: 528 PIKIVMEAIQQASVAKKEILQIMNKTISKPRASRKEN------------GPVVETVQVPL 575
Query: 95 KVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEV 132
VGP G +K++Q +T VT S+ E F V
Sbjct: 576 SKRAKFVGPGGYNLKKLQAETG---VTISQVDEETFSV 610
>pdb|2CTK|A Chain A, Solution Structure Of The 12th Kh Type I Domain From Human
Vigilin
Length = 104
Score = 32.0 bits (71), Expect = 0.43, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 86 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRD-KEPVFEVTG 134
VTIEV VP+ + V+G KG+ I+++ + I P+ + + + +TG
Sbjct: 17 VTIEVEVPFDLHRYVIGQKGSGIRKMMDEFEVNIHVPAPELQSDIIAITG 66
>pdb|1CHC|A Chain A, Structure Of The C3hc4 Domain By 1h-Nuclear Magnetic
Resonance Spectroscopy; A New Structural Class Of Zinc-
Finger
Length = 68
Score = 32.0 bits (71), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 31/60 (51%), Gaps = 2/60 (3%)
Query: 254 RQCYLCNDREVTHAL-IPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRIIFNQFLFG 312
+C +C + +++ +PC H F C C R + TCP+C+VPV + I + FG
Sbjct: 6 ERCPICLEDPSNYSMALPCLHAF-CYVCITRWIRQNPTCPLCKVPVESVVHTIESDSEFG 64
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 32.0 bits (71), Expect = 0.48, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 255 QCYLC----NDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 298
+C +C D E L CGH F +EC + TCP+CR+ V
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFH-AECVDMWLGSHSTCPLCRLTV 53
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 32.0 bits (71), Expect = 0.49, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDF---DRTCPMC 294
C +C D +IPC N +C EC RT + TCP C
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECI-RTALLESDEHTCPTC 58
>pdb|3KRM|A Chain A, Imp1 Kh34
pdb|3KRM|B Chain B, Imp1 Kh34
pdb|3KRM|C Chain C, Imp1 Kh34
Length = 163
Score = 31.6 bits (70), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 7/53 (13%)
Query: 90 VRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEP------VFEVTGNF 136
+RVP G V+G G T+ +Q+ T +V P RD+ P + ++ G+F
Sbjct: 89 IRVPASAAGRVIGKGGKTVNELQNLTAAEVVVP-RDQTPDENDQVIVKIIGHF 140
>pdb|4B8T|A Chain A, Rna Binding Protein Solution Structure Of The Third Kh
Domain Of Ksrp In Complex With The G-rich Target
Sequence
Length = 106
Score = 31.6 bits (70), Expect = 0.72, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 33/79 (41%), Gaps = 14/79 (17%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGNFPE------GPG 141
I+V VP VG+V+G G IK+IQ+ I D G PE GP
Sbjct: 13 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD--------GTGPEKIAHIMGPP 64
Query: 142 FESHHGQKIVFILTSNLYS 160
H +I+ L +L S
Sbjct: 65 DRCEHAARIINDLLQSLRS 83
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 31.2 bits (69), Expect = 0.76, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + D + CP CR + II + F
Sbjct: 29 CKICAENDKDVKIEPCGH-LMCTSCLTAWQESDGQGCPFCRCEIKGTEPIIVDPF 82
>pdb|2HH3|A Chain A, Solution Structure Of The Third Kh Domain Of Ksrp
Length = 106
Score = 31.2 bits (69), Expect = 0.79, Method: Composition-based stats.
Identities = 25/79 (31%), Positives = 33/79 (41%), Gaps = 14/79 (17%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGNFPE------GPG 141
I+V VP VG+V+G G IK+IQ+ I D G PE GP
Sbjct: 13 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD--------GTGPEKIAHIMGPP 64
Query: 142 FESHHGQKIVFILTSNLYS 160
H +I+ L +L S
Sbjct: 65 DRCEHAARIINDLLQSLRS 83
>pdb|1ZZI|A Chain A, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZI|B Chain B, Crystal Structure Analysis Of The Third Kh Domain Of Hnrnp
K In Complex With Ssdna
pdb|1ZZJ|A Chain A, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|B Chain B, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZJ|C Chain C, Structure Of The Third Kh Domain Of Hnrnp K In Complex
With 15-Mer Ssdna
pdb|1ZZK|A Chain A, Crystal Structure Of The Third Kh Domain Of Hnrnp K At
0.95a Resolution
Length = 82
Score = 30.8 bits (68), Expect = 1.0, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 26/49 (53%), Gaps = 9/49 (18%)
Query: 71 GALSPLSPPTGVPGHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
GA+ P+ +T +V +P + G ++G G IK+I+H++ I
Sbjct: 1 GAMGPI---------ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASI 40
>pdb|2Y43|A Chain A, Rad18 Ubiquitin Ligase Ring Domain Structure
pdb|2Y43|B Chain B, Rad18 Ubiquitin Ligase Ring Domain Structure
Length = 99
Score = 30.4 bits (67), Expect = 1.4, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 255 QCYLCNDREVTHALIP-CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
+C +C + +IP C HN+ CS C + + CP C V V +
Sbjct: 24 RCGICFEYFNIAMIIPQCSHNY-CSLCIRKFLSYKTQCPTCCVTVTE 69
>pdb|3VGO|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|B Chain B, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
pdb|3VGO|C Chain C, Crystal Structure Of The N-Terminal Fragment Of Cbl-B
Length = 394
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + D + CP CR + II + F
Sbjct: 341 CKICAENDKDVKIEPCGH-LMCTSCLTAWQESDGQGCPFCRCEIKGTEPIIVDPF 394
>pdb|1J5K|A Chain A, Complex Of The Kh3 Domain Of Hnrnp K With A
Single_stranded 10mer Dna Oligonucleotide
Length = 89
Score = 30.0 bits (66), Expect = 1.7, Method: Composition-based stats.
Identities = 11/34 (32%), Positives = 21/34 (61%)
Query: 86 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
+T +V +P + G ++G G IK+I+H++ I
Sbjct: 14 ITTQVTIPKDLAGSIIGKGGQRIKQIRHESGASI 47
>pdb|2ANN|A Chain A, Crystal Structure (I) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25 NT RNA Hairpin
Length = 178
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 69 KSGALSPLSPPTGV-PGHVT-IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
K+ +S L P T V P +++ VP GL++G GAT+K I Q+ ++
Sbjct: 85 KTEPVSILQPQTTVNPDRANQVKIIVPNSTAGLIIGKGGATVKAIMEQSGAWV 137
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 256 CYLCNDREV-THALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
C LC + +I C H+F C C R + + CP+C V V++
Sbjct: 14 CVLCGGYFIDATTIIECLHSF-CKTCIVRYLETSKYCPICDVQVHK 58
>pdb|3VKE|A Chain A, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|B Chain B, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|C Chain C, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
pdb|3VKE|D Chain D, Contribution Of The First K-Homology Domain Of
Poly(C)-Binding Protein 1 To Its Affinity And
Specificity For C-Rich Oligonucleotides
Length = 76
Score = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 15/50 (30%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 86 VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEPVFEVTG 134
+TI + + K VG ++G KG ++KRI+ ++ I ++ E + +TG
Sbjct: 3 LTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNSPERIITLTG 52
>pdb|2ANR|A Chain A, Crystal Structure (Ii) Of Nova-1 Kh1KH2 DOMAIN TANDEM WITH
25NT RNA Hairpin
Length = 178
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
+++ VP GL++G GAT+K I Q+ ++
Sbjct: 106 VKIIVPNSTAGLIIGKGGATVKAIXEQSGAWV 137
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.6 bits (65), Expect = 2.2, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 256 CYLCNDREV-THALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
C LC + +I C H+F C C R + + CP+C V V++
Sbjct: 18 CVLCGGYFIDATTIIECLHSF-CKTCIVRYLETSKYCPICDVQVHK 62
>pdb|1K1G|A Chain A, Structural Basis For Recognition Of The Intron Branch Site
Rna By Splicing Factor 1
Length = 131
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 97 VGLVVGPKGATIKRIQHQTNTYIV 120
VGL++GP+G T+K I+ + N I+
Sbjct: 24 VGLLIGPRGNTLKNIEKECNAKIM 47
>pdb|1TMO|A Chain A, Trimethylamine N-Oxide Reductase From Shewanella Massilia
Length = 829
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 17/76 (22%)
Query: 53 EILSAADHFSALRASRKSGALSPLSP------PT----GVPGHVTIEVRVPYKVVGLVVG 102
E L+ HF A + RK+G ++ + P PT G+ G V RV Y +V L
Sbjct: 39 EWLTTGSHFGAFKMKRKNGVIAEVKPFDLDKYPTDMINGIRGMVYNPSRVRYPMVRLDFL 98
Query: 103 PKGATIKRIQHQTNTY 118
KG H++NT+
Sbjct: 99 LKG-------HKSNTH 107
>pdb|2JVZ|A Chain A, Solution Nmr Structure Of The Second And Third Kh Domains
Of Ksrp
Length = 164
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 33/79 (41%), Gaps = 14/79 (17%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYIVTPSRDKEPVFEVTGNFPE------GPG 141
I+V VP VG+V+G G IK+IQ+ I D G PE GP
Sbjct: 93 IDVPVPRHSVGVVIGRSGEMIKKIQNDAGVRIQFKQDD--------GTGPEKIAHIMGPP 144
Query: 142 FESHHGQKIVFILTSNLYS 160
H +I+ L +L S
Sbjct: 145 DRCEHAARIINDLLQSLRS 163
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 89 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV 120
E+ +P GLV+G G TIK++Q + ++
Sbjct: 5 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMI 36
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 6/43 (13%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSEC----AERTCDFDRTCPMC 294
C +C D I CGHN FC +C E +C F + CP+C
Sbjct: 23 CPICLDILQKPVTIDCGHN-FCLKCITQIGETSCGFFK-CPLC 63
>pdb|1X4M|A Chain A, Solution Structure Of Kh Domain In Far Upstream Element
Binding Protein 1
Length = 94
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 12/32 (37%), Positives = 19/32 (59%)
Query: 89 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV 120
E+ +P GLV+G G TIK++Q + +V
Sbjct: 18 EIMIPASKAGLVIGKGGETIKQLQERAGVKMV 49
>pdb|1ZTG|A Chain A, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|B Chain B, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|C Chain C, Human Alpha Polyc Binding Protein Kh1
pdb|1ZTG|D Chain D, Human Alpha Polyc Binding Protein Kh1
Length = 74
Score = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 30/52 (57%), Gaps = 1/52 (1%)
Query: 84 GHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-VTPSRDKEPVFEVTG 134
G +TI + + K VG ++G KG ++KRI+ ++ I ++ E + +TG
Sbjct: 1 GILTIRLLMHGKEVGSIIGKKGESVKRIREESGARINISEGNCPERIITLTG 52
>pdb|1E3H|A Chain A, Semet Derivative Of Streptomyces Antibioticus PnpaseGPSI
Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
I V++P +G V+GPK I +IQ T I
Sbjct: 600 ITVKIPVDKIGEVIGPKRQXINQIQEDTGAEI 631
>pdb|1E3P|A Chain A, Tungstate Derivative Of Streptomyces Antibioticus Pnpase
Gpsi Enzyme
Length = 757
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 18/32 (56%)
Query: 88 IEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
I V++P +G V+GPK I +IQ T I
Sbjct: 600 ITVKIPVDKIGEVIGPKRQMINQIQEDTGAEI 631
>pdb|1X4N|A Chain A, Solution Structure Of Kh Domain In Fuse Binding Protein 1
Length = 92
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 6/46 (13%)
Query: 80 TGVPGH------VTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI 119
+G GH +T E +VP +VG ++G G I RIQ ++ I
Sbjct: 3 SGSSGHQQQRSVMTEEYKVPDGMVGFIIGRGGEQISRIQQESGCKI 48
>pdb|3I4R|B Chain B, Nup107(Aa658-925)NUP133(AA517-1156) Complex, H.Sapiens
Length = 644
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 272 GHNFFCSECAERTCDFDRTCPMCRVPVNQA 301
G + + AE+ CDFD MC NQ+
Sbjct: 342 GQYLWAASLAEKYCDFDILVQMCEQTDNQS 371
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + + + CP CR + I+ + F
Sbjct: 27 CKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDPF 80
>pdb|1J4W|A Chain A, Complex Of The Kh3 And Kh4 Domains Of Fbp With A
Single_stranded 29mer Dna Oligonucleotide From The Fuse
Element Of The C-Myc Oncogene
Length = 174
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 16/84 (19%)
Query: 84 GHVTIEVRVPYKVVGLVVGPKGATIKRIQHQTNTYI-------VTPSRDKEPVFEVTGNF 136
G I+V +P VG+V+G G IK+IQ+ I TP R + ++T
Sbjct: 1 GSHMIDVPIPRFAVGIVIGRNGEMIKKIQNDAGVRIQFKPDDGTTPER----IAQIT--- 53
Query: 137 PEGPGFESHHGQKIVFILTSNLYS 160
GP + H +I+ L ++ +
Sbjct: 54 --GPPDRAQHAAEIITDLLRSVQA 75
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAER---TCDFDRTCPMC 294
C +C + +I CGHN FC C R + D CP+C
Sbjct: 18 CSVCLEYLKEPVIIECGHN-FCKACITRWWEDLERDFPCPVC 58
>pdb|2CTE|A Chain A, Solution Structure Of The 1st Kh Type I Domain From
Human Vigilin
Length = 94
Score = 28.9 bits (63), Expect = 4.2, Method: Composition-based stats.
Identities = 17/45 (37%), Positives = 27/45 (60%), Gaps = 3/45 (6%)
Query: 13 GCKIKALRAKTNTYIKTPVRGEEPV--FVVTGRKEDVARAKREIL 55
G K++ L KT T I+ P R ++P +TG KE + +A+ E+L
Sbjct: 36 GEKLQDLELKTATKIQIP-RPDDPSNQIKITGTKEGIEKARHEVL 79
>pdb|4EPO|C Chain C, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|G Chain G, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|H Chain H, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|K Chain K, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
pdb|4EPO|L Chain L, Crystal Structure Of Rnf8 Bound To The Ubc13MMS2
HETERODIMER
Length = 149
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 255 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 298
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 66 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 108
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 19/29 (65%), Gaps = 1/29 (3%)
Query: 268 LIPCGHNFFCSECAERTCDFDRTCPMCRV 296
++PC H F ++C ++ +RTCP+CR
Sbjct: 41 VLPCNHEFH-AKCVDKWLKANRTCPICRA 68
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 255 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 298
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 55 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 97
>pdb|3NG2|A Chain A, Crystal Structure Of The Rnf4 Ring Domain Dimer
pdb|3NG2|B Chain B, Crystal Structure Of The Rnf4 Ring Domain Dimer
Length = 71
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 271 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
CGH FCS+C + TCP CR +N
Sbjct: 35 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 63
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + + + CP CR + I+ + F
Sbjct: 337 CKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDPF 390
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + + + CP CR + I+ + F
Sbjct: 337 CKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDPF 390
>pdb|2VJE|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJE|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|B Chain B, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
pdb|2VJF|D Chain D, Crystal Structure Of The Mdm2-Mdmx Ring Domain Heterodimer
Length = 63
Score = 28.5 bits (62), Expect = 5.4, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 2/53 (3%)
Query: 254 RQCYLCNDREVTHALI--PCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 304
+ C LC R +I GH C CA R +CP+C+ + +++
Sbjct: 8 KPCSLCEKRPRDGNIIHGRTGHLVTCFHCARRLKKAGASCPICKKEIQLVIKV 60
>pdb|2OPV|A Chain A, Solution Nmr Structure Of The Second Domain Of Ksrp
Length = 85
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 89 EVRVPYKVVGLVVGPKGATIKRIQHQTNTYIV 120
E+ +P GLV+G G TIK++Q + ++
Sbjct: 17 EIMIPAGKAGLVIGKGGETIKQLQERAGVKMI 48
>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
Length = 389
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + + + CP CR + I+ + F
Sbjct: 335 CKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDPF 388
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 28.5 bits (62), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 14/55 (25%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 256 CYLCNDREVTHALIPCGHNFFCSECAERTCDFD-RTCPMCRVPVNQAMRIIFNQF 309
C +C + + + PCGH C+ C + + + CP CR + I+ + F
Sbjct: 335 CKICAENDKDVKIEPCGH-LMCTSCLTSWQESEGQGCPFCRCEIKGTEPIVVDPF 388
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 271 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
CGH FCS+C + TCP CR +N
Sbjct: 28 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 56
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 271 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
CGH FCS+C + TCP CR +N
Sbjct: 32 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 60
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 271 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
CGH FCS+C + TCP CR +N
Sbjct: 97 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 125
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 271 CGHNFFCSECAERTCDFDRTCPMCRVPVNQ 300
CGH FCS+C + TCP CR +N
Sbjct: 40 CGH-VFCSQCLRDSLKNANTCPTCRKKINH 68
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 21/44 (47%), Gaps = 1/44 (2%)
Query: 255 QCYLCNDREVTHALIPCGHNFFCSECAERTCDFDRTCPMCRVPV 298
QC +C++ + + C H+ FCS C CP+CR +
Sbjct: 55 QCIICSEYFIEAVTLNCAHS-FCSYCINEWMKRKIECPICRKDI 97
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 28.1 bits (61), Expect = 8.0, Method: Composition-based stats.
Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 267 ALIPCGHNFFCSECAERTCDFDRTCPMCRVPVNQAMRI 304
+ PC H F +C + + + CP+C +PV Q ++
Sbjct: 32 GICPCKHAFH-RKCLIKWLEVRKVCPLCNMPVLQLAQL 68
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.323 0.138 0.435
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,194,468
Number of Sequences: 62578
Number of extensions: 331624
Number of successful extensions: 737
Number of sequences better than 100.0: 67
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 689
Number of HSP's gapped (non-prelim): 71
length of query: 329
length of database: 14,973,337
effective HSP length: 99
effective length of query: 230
effective length of database: 8,778,115
effective search space: 2018966450
effective search space used: 2018966450
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 52 (24.6 bits)