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= 045745
(351 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 27/52 (51%), Positives = 37/52 (71%)
Query: 192 HVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
HV S C VCKE + LG R++PC H++H+ CI+PWL+ +SCPVCR+ L
Sbjct: 11 HVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 49.7 bits (117), Expect = 3e-06, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 26/45 (57%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
C +C E G + R +PC H++H+ C+ WL CP+CR ++
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>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 = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 30/54 (55%)
Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
G V E C +C + G+ A E+PC H +H+ C+ WL+ +CPVCR P
Sbjct: 35 GAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCRCMFP 88
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 48.1 bits (113), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 19/41 (46%), Positives = 27/41 (65%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVC 239
CAVC E F+ +E PCKH +H C++ WL++R CP+C
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 27/52 (51%)
Query: 191 GHVSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQE 242
H S + C VC FE R +PC H +H C+ WLK +CP+CR +
Sbjct: 18 NHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICRAD 69
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%)
Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVCR 240
CAVC E G EAR +P C H +H +C+ WL ++CP+CR
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
+ +E C +C E F EA + C H + CI W+K + CP+CR+++
Sbjct: 50 LENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
+ +E C +C E F EA + C H + CI W+K + CP+CR+++
Sbjct: 61 LENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 193 VSSECHCAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCRQELP 244
+ +E C +C E F EA + C H + CI W+K + CP+CR+++
Sbjct: 50 LENELQCIICSEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 34.7 bits (78), Expect = 0.078, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H C+ W+K N CP+C+Q+
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQD 73
>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 = 32.3 bits (72), Expect = 0.37, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNRE 100
>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 = 32.3 bits (72), Expect = 0.38, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNRE 90
>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 = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>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 = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNRE 98
>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 = 32.3 bits (72), Expect = 0.42, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNRE 82
>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 = 32.0 bits (71), Expect = 0.47, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 194 SSECHCAVCKEAF-ELGNEAR---EMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
S C +C + + E+ R C H++ C+ LK N+CP CR+++
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 32.0 bits (71), Expect = 0.51, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNRE 92
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 32.0 bits (71), Expect = 0.58, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 26/54 (48%), Gaps = 4/54 (7%)
Query: 194 SSECHCAVCKEAF-ELGNEAR---EMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
S C +C + + E+ R C H++ C+ LK N+CP CR+++
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 0.61, Method: Composition-based stats.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 199 CAVCKEAF-ELGNEAR---EMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
C +C + + E+ R C H++ C+ LK N+CP CR+++
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 2/42 (4%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCR 240
C +C E + N + +PC H + CI W++ +CP+C+
Sbjct: 8 CPICLE--DPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 215 MPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
+PC H + + CI W +CP+CR ++
Sbjct: 30 LPCAHSFCQKCIDKWSDRHRNCPICRLQM 58
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 198 HCAVCKEAFELGNEAREMPCKHIYHEDCI--LPWLKMRNSCPVCRQELP 244
CA+C + +PCKH++ C+ WL R C +CRQE+P
Sbjct: 17 ECAIC---LQTCVHPVSLPCKHVFCYLCVKGASWLGKR--CALCRQEIP 60
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 199 CAVCKEAF-ELGNEAR---EMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
C +C + + E+ R C H++ C+ LK N+CP CR+++
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 4/49 (8%)
Query: 199 CAVCKEAF-ELGNEAR---EMPCKHIYHEDCILPWLKMRNSCPVCRQEL 243
C +C + + E+ R C H++ C+ LK N+CP CR+++
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 123
>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 = 1.6, Method: Composition-based stats.
Identities = 16/42 (38%), Positives = 20/42 (47%), Gaps = 4/42 (9%)
Query: 199 CAVCKEAFELGNEAREMP-CKHIYHEDCILPWLKMRNSCPVC 239
C +C FE N A +P C H Y CI +L + CP C
Sbjct: 25 CGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 30.0 bits (66), Expect = 1.8, Method: Composition-based stats.
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 6/48 (12%)
Query: 199 CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMR---NSCPVCRQEL 243
C +C EL E C HI+ + C+L L + + CP+C+ ++
Sbjct: 24 CPIC---LELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDI 68
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 217 CKHIYHEDCILPWLKMRNSCPVCRQE 242
C H +H CI WLK R CP+ +E
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNRE 109
>pdb|3G6T|A Chain A, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
pdb|3G6T|B Chain B, Gr Gamma Dna-Binding Domain:fkbp5 16bp Complex-34
Length = 91
Score = 29.3 bits (64), Expect = 3.6, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 194 SSECH-----CAVCKEAFELGNEAREMPCKHIYHEDCILPWLKMRNSCPVCR 240
+S CH C CK F+ E R+ DCI+ ++ +N CP CR
Sbjct: 12 ASGCHYGVLTCGSCKVFFKRAVEGRQHNYLCAGRNDCIIDKIRRKN-CPACR 62
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
0.322 0.136 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,351,748
Number of Sequences: 62578
Number of extensions: 210235
Number of successful extensions: 430
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 402
Number of HSP's gapped (non-prelim): 43
length of query: 351
length of database: 14,973,337
effective HSP length: 100
effective length of query: 251
effective length of database: 8,715,537
effective search space: 2187599787
effective search space used: 2187599787
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 52 (24.6 bits)