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= 022069
(303 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2L0B|A Chain A, Solution Nmr Structure Of Zinc Finger Domain Of E3
Ubiquitin-Protein Ligase Praja-1 From Homo Sapiens,
Northeast Structural Genomics Consortium (Nesg) Target
Hr4710b
Length = 91
Score = 55.1 bits (131), Expect = 5e-08, Method: Composition-based stats.
Identities = 21/42 (50%), Positives = 29/42 (69%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCK 293
C IC S+YV G LPC+H+FH C+S WL+ + TCP+C+
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 20/46 (43%), Positives = 28/46 (60%)
Query: 248 EDSDCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCK 293
E + C +C+ + L LPCNH FH C+ KWL+ N TCP+C+
Sbjct: 22 EQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 51.6 bits (122), Expect = 6e-07, Method: Composition-based stats.
Identities = 20/45 (44%), Positives = 28/45 (62%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNI 296
C ICLS +G ++ LPC H FH C+ +WL N CP+C+ +I
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 50.8 bits (120), Expect = 1e-06, Method: Composition-based stats.
Identities = 23/57 (40%), Positives = 28/57 (49%), Gaps = 3/57 (5%)
Query: 236 NSNSTDELALHPEDSDCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLC 292
+S EL LH C +CL + EL PC H FH C+ KWL + CPLC
Sbjct: 5 SSGKVKELNLH---ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 50.4 bits (119), Expect = 1e-06, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 29/51 (56%)
Query: 251 DCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIRRGDT 301
+C +C Y G + LPCNH FH CI WL + +CP+C+ ++ +T
Sbjct: 17 ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNT 67
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 47.8 bits (112), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 29/47 (61%), Gaps = 1/47 (2%)
Query: 251 DCCICLSQYVDGAELYTLP-CNHHFHCGCISKWLRINATCPLCKYNI 296
+C +CL++ DG E LP C H FH C+ WL ++TCPLC+ +
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 44.3 bits (103), Expect = 8e-05, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 31/61 (50%), Gaps = 4/61 (6%)
Query: 236 NSNSTDELALHPEDSDCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYN 295
+S S+ + ++ +CCIC+ DG LPC H F CI KW + CP+C+
Sbjct: 2 SSGSSGRVKQLTDEEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQ 57
Query: 296 I 296
+
Sbjct: 58 M 58
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 16/30 (53%), Positives = 20/30 (66%)
Query: 268 LPCNHHFHCGCISKWLRINATCPLCKYNIR 297
LPC H F CI++W+R N TCPLCK +
Sbjct: 22 LPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIR 297
C IC +++ TL C H F CI++W++ CP+C+ +I+
Sbjct: 56 CIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIR 297
C IC +++ TL C H F CI++W++ CP+C+ +I+
Sbjct: 56 CIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 37.4 bits (85), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 26/47 (55%), Gaps = 3/47 (6%)
Query: 251 DCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIR 297
C IC +++ TL C H F CI++W++ CP+C+ +I+
Sbjct: 66 QCIICSEYFIEAV---TLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 98
Score = 36.6 bits (83), Expect = 0.016, Method: Composition-based stats.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 34.7 bits (78), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 34/74 (45%), Gaps = 15/74 (20%)
Query: 233 EMSNSNSTDELALHPEDSDCCICLSQYVD------------GAELYTLP---CNHHFHCG 277
E+ SN++ + A +C IC + +D +E T+ CNH FH
Sbjct: 15 EVKKSNASAQSAWDIVVDNCAICRNHIMDLCIECQANQASATSEECTVAWGVCNHAFHFH 74
Query: 278 CISKWLRINATCPL 291
CIS+WL+ CPL
Sbjct: 75 CISRWLKTRQVCPL 88
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 34.7 bits (78), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 34.3 bits (77), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 34.3 bits (77), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 15/22 (68%)
Query: 270 CNHHFHCGCISKWLRINATCPL 291
CNH FH CIS+WL+ CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 18/27 (66%)
Query: 269 PCNHHFHCGCISKWLRINATCPLCKYN 295
CNH FH C+S W++ N CPLC+ +
Sbjct: 47 ECNHSFHNCCMSLWVKQNNRCPLCQQD 73
>pdb|2ECM|A Chain A, Solution Structure Of The Ring Domain Of The Ring Finger
And Chy Zinc Finger Domain-Containing Protein 1 From Mus
Musculus
Length = 55
Score = 33.1 bits (74), Expect = 0.19, Method: Composition-based stats.
Identities = 16/44 (36%), Positives = 20/44 (45%), Gaps = 1/44 (2%)
Query: 250 SDCCICLSQ-YVDGAELYTLPCNHHFHCGCISKWLRINATCPLC 292
S C ICL + + LPC H H C + L+ CPLC
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.7 bits (73), Expect = 0.26, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 251 DCCICLSQ-YVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYN 295
+C ICL + + LPC H H C + L+ CPLC ++
Sbjct: 7 NCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 32.7 bits (73), Expect = 0.29, Method: Composition-based stats.
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIRRGDTLV 303
C +C ++D + + C H F CI ++L + CP+C + + L+
Sbjct: 14 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 63
>pdb|2D8S|A Chain A, Solution Structure Of The Ring Domain Of The Human
Cellular Modulator Of Immune Recognition Protein
Length = 80
Score = 31.6 bits (70), Expect = 0.56, Method: Composition-based stats.
Identities = 20/56 (35%), Positives = 28/56 (50%), Gaps = 9/56 (16%)
Query: 247 PEDSDCC-ICLSQYVDGAELYTLPCN-----HHFHCGCISKWLRINAT--CPLCKY 294
P D C IC + D + L T PC+ H H C+ +W++ + T C LCKY
Sbjct: 12 PSSQDICRICHCEGDDESPLIT-PCHCTGSLHFVHQACLQQWIKSSDTRCCELCKY 66
>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 = 29.6 bits (65), Expect = 2.4, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 252 CCICLSQYVD----GAELYTLPCNHHFHCGCISKWLRINATCPLCKYNI 296
C IC+ Y + G + + C H F C+ L+ TCP C+ I
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|3RRQ|A Chain A, Crystal Structure Of The Extracellular Domain Of Human
Pd-1
Length = 129
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 5/38 (13%)
Query: 234 MSNSNSTDELALHPED-----SDCCICLSQYVDGAELY 266
MS SN TD+LA PED DC ++Q +G + +
Sbjct: 39 MSPSNQTDKLAAFPEDRSQPGQDCRFRVTQLPNGRDFH 76
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.3 bits (64), Expect = 2.9, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 252 CCICLSQYVD----GAELYTLPCNHHFHCGCISKWLRINATCPLCKYNI 296
C IC+ Y + G + + C H F C+ L+ TCP C+ I
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.3 bits (64), Expect = 3.1, Method: Composition-based stats.
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 4/49 (8%)
Query: 252 CCICLSQYVD----GAELYTLPCNHHFHCGCISKWLRINATCPLCKYNI 296
C IC+ Y + G + + C H F C+ L+ TCP C+ I
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIRRGDTLV 303
C +C ++D + + C H F CI ++L + CP+C + + L+
Sbjct: 18 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 67
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/52 (25%), Positives = 25/52 (48%), Gaps = 2/52 (3%)
Query: 252 CCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINATCPLCKYNIRRGDTLV 303
C +C ++D + + C H F CI ++L + CP+C + + L+
Sbjct: 18 CVLCGGYFIDATTI--IECLHSFCKTCIVRYLETSKYCPICDVQVHKTRPLL 67
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 28.1 bits (61), Expect = 5.7, Method: Composition-based stats.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 248 EDSDCCICLSQYVDGAELYTLPCNHHFHCGCISKWLRINA---TCPLCKYNIRR 298
E+ C ICL + T+ C H+F CI++ + CPLCK ++R+
Sbjct: 19 EEVICPICLDIL---QKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRK 69
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
0.326 0.138 0.444
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,493,667
Number of Sequences: 62578
Number of extensions: 308790
Number of successful extensions: 679
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 655
Number of HSP's gapped (non-prelim): 39
length of query: 303
length of database: 14,973,337
effective HSP length: 98
effective length of query: 205
effective length of database: 8,840,693
effective search space: 1812342065
effective search space used: 1812342065
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 51 (24.3 bits)