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= 027422
(223 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 25/49 (51%), Positives = 37/49 (75%)
Query: 165 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
+D+ + C++CL + E+G+ AR LP CGH FH+ECVD WL + +CP+CR
Sbjct: 2 MDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 56.6 bits (135), Expect = 1e-08, Method: Composition-based stats.
Identities = 24/43 (55%), Positives = 29/43 (67%), Gaps = 1/43 (2%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
C+ICL EEG+ R+LP C H FH CVD+WL N CP+CR
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58
>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 = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 30/69 (43%), Positives = 43/69 (62%), Gaps = 2/69 (2%)
Query: 145 SEDMIQKLPECALHSEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT 204
S++ I LPE L +E+ + E+ C IC ++ +GD A +LP C H FH CV WL
Sbjct: 18 SKESIDALPE-ILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQ 75
Query: 205 RNGSCPVCR 213
++G+CPVCR
Sbjct: 76 KSGTCPVCR 84
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 21/44 (47%), Positives = 29/44 (65%), Gaps = 1/44 (2%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 214
C +C E + G+S R+LP C H FH C+ WL ++ SCPVCR+
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRK 60
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 22/43 (51%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
C +C+ FE R LP C H FH++CVDKWL N +CP+CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/49 (40%), Positives = 29/49 (59%), Gaps = 4/49 (8%)
Query: 165 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
L+NE+ C IC E F E + +C H F S C+++W+ R CP+CR
Sbjct: 50 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 4/50 (8%)
Query: 165 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 214
L+NE+ C IC E F E + +C H F S C+++W+ R CP+CR+
Sbjct: 50 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRK 95
>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 = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 30/50 (60%), Gaps = 4/50 (8%)
Query: 165 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 214
L+NE+ C IC E F E + +C H F S C+++W+ R CP+CR+
Sbjct: 61 LENELQCIICSEYFIEAVTL----NCAHSFCSYCINEWMKRKIECPICRK 106
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 41.6 bits (96), Expect = 4e-04, Method: Composition-based stats.
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 212
C++CLE F+ D P C H FH +C+ KWL CP+C
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 32/55 (58%), Gaps = 5/55 (9%)
Query: 159 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
S + QL +E C IC++ G + LP C H F +C+DKW R+ +CP+CR
Sbjct: 6 SGRVKQLTDEEECCICMD----GRADLILP-CAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 165 LDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 212
+D+ + C IC E F + A +P C H + S C+ K+L+ CP C
Sbjct: 19 IDDLLRCGICFEYF---NIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>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 = 35.8 bits (81), Expect = 0.021, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 26/43 (60%), Gaps = 3/43 (6%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCR 213
C ICLE + + + LP C H F C+ +W+ +N +CP+C+
Sbjct: 8 CPICLE--DPSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 35.4 bits (80), Expect = 0.026, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 169 IGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 214
+ C IC++ + E +L CGH F S+C+ L +CP CR+
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 35.0 bits (79), Expect = 0.029, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 169 IGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 214
+ C IC++ + E +L CGH F S+C+ L +CP CR+
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 52
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 34.3 bits (77), Expect = 0.054, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 169 IGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 214
+ C IC++ + E +L CGH F S+C+ L +CP CR+
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 64
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 21/54 (38%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 162 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKW---LTRNGSCPVC 212
L L E CS+CLE +E + CGH F C+ +W L R+ CPVC
Sbjct: 9 LENLQVEASCSVCLEYLKE----PVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 34.3 bits (77), Expect = 0.064, Method: Composition-based stats.
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 212
C ICLE + CGH H C ++ L CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 33.5 bits (75), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 22/57 (38%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 159 SEELIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTR--NG-SCPVC 212
S L L + C IC+E F E KL CGH +C++K L NG CP C
Sbjct: 6 SGNLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>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 = 0.13, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 19/43 (44%)
Query: 170 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVC 212
GC ICLE + CGH H C ++ L CP+C
Sbjct: 7 GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 170 GCSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGSCPVCRE 214
C C + ++ D C H FH+ C+ W+ +N CP+C++
Sbjct: 28 ACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 169 IGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 214
+ C IC++ + E +L CGH F S+C+ L +CP CR+
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 3/49 (6%)
Query: 169 IGCSICLEKFEEGDSARKL---PSCGHCFHSECVDKWLTRNGSCPVCRE 214
+ C IC++ + E +L CGH F S+C+ L +CP CR+
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 32.0 bits (71), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/52 (40%), Positives = 26/52 (50%), Gaps = 10/52 (19%)
Query: 168 EIGCSICLEKFEEGDSARKLPSCGHCFHSECV--DKWLTRN----GSCPVCR 213
E+ C ICLE +E SA C H F C+ + RN G+CPVCR
Sbjct: 19 EVTCPICLELLKEPVSA----DCNHSFCRACITLNYESNRNTDGKGNCPVCR 66
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 11/70 (15%)
Query: 159 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVC 212
++E +L E+G C IC E D K+ CGH + C+ W G CP C
Sbjct: 320 TQEQFELXCEMGSTFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
Query: 213 RECVCKDTDT 222
R C K T+
Sbjct: 376 R-CEIKGTEP 384
>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 = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCKDTDT 222
C IC E D K+ CGH + C+ W +G CP CR C K T+
Sbjct: 341 CKIC----AENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCR-CEIKGTEP 388
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 31/70 (44%), Gaps = 11/70 (15%)
Query: 159 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVC 212
++E +L E+G C IC E D K+ CGH + C+ W G CP C
Sbjct: 320 TQEQYELXCEMGSTFQLCKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
Query: 213 RECVCKDTDT 222
R C K T+
Sbjct: 376 R-CEIKGTEP 384
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCKDTDT 222
C IC E D K+ CGH + C+ W G CP CR C K T+
Sbjct: 335 CKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR-CEIKGTEP 382
>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 = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 23/53 (43%), Gaps = 6/53 (11%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVCRECVCKDTDT 222
C IC E D K+ CGH + C+ W G CP CR C K T+
Sbjct: 335 CKIC----AENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR-CEIKGTEP 382
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 162 LIQLDNEIGCSICLEKFEEGDSARKLPSCGHCFHSECV----DKWLTRNG--SCPVCR 213
L+ + E+ C ICLE + S CGH F C+ K + G SCPVCR
Sbjct: 13 LVNVKEEVTCPICLELLTQPLSL----DCGHSFCQACLTANHKKSMLDKGESSCPVCR 66
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 28/61 (45%), Gaps = 10/61 (16%)
Query: 159 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVC 212
++E +L E+G C IC E D K+ CGH + C+ W +G CP C
Sbjct: 12 TQEQYELXCEMGSTFQLCKICAEN----DKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 67
Query: 213 R 213
R
Sbjct: 68 R 68
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 159 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVC 212
++E +L E+G C IC E D K+ CGH + C+ W G CP C
Sbjct: 13 TQEQFELXCEMGSTFQLCKICAE----NDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 68
Query: 213 R 213
R
Sbjct: 69 R 69
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%), Gaps = 4/44 (9%)
Query: 171 CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLT-RNGSCPVCR 213
C IC EK + AR P C C+ +WLT + CP CR
Sbjct: 25 CFICXEKLRD---ARLCPHCSKLCCFSCIRRWLTEQRAQCPHCR 65
>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 = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|3UNG|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
pdb|3UR3|C Chain C, Structure Of The Cmr2 Subunit Of The Crispr Rna Silencing
Complex
Length = 693
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 29/119 (24%), Positives = 47/119 (39%), Gaps = 28/119 (23%)
Query: 117 VFMEWVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEE------------LIQ 164
V + WVS E D+Y VT GLS++ ++K + A E L++
Sbjct: 190 VSITWVS-----LSEKEDIYQVTENAGLSDEDVKKWLKFAEKKENSRVLERIAIYPLLVK 244
Query: 165 LDNEIG-CSICLEKFEEGDSAR--KLPSCGHCF--------HSECVDKWLTRNGSCPVC 212
+ + +G + E+FE+ + + K CG H WL CP+C
Sbjct: 245 ILDSLGERKVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHDNLKSLWLDEEPLCPMC 303
>pdb|4DOZ|A Chain A, Crystal Structure Of Pyrococcus Furiosus Cmr2 (Cas10)
Length = 686
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 29/119 (24%), Positives = 47/119 (39%), Gaps = 28/119 (23%)
Query: 117 VFMEWVSTLETAYREVSDVYDVTGVKGLSEDMIQKLPECALHSEE------------LIQ 164
V + WVS E D+Y VT GLS++ ++K + A E L++
Sbjct: 175 VSITWVS-----LSEKEDIYQVTENAGLSDEDVKKWLKFAEKKENSRVLERIAIYPLLVK 229
Query: 165 LDNEIG-CSICLEKFEEGDSAR--KLPSCGHCF--------HSECVDKWLTRNGSCPVC 212
+ + +G + E+FE+ + + K CG H WL CP+C
Sbjct: 230 ILDSLGERKVTEERFEKSEQLKGWKCHVCGENLAIFGDMYDHDNLKSLWLDEEPLCPMC 288
>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 = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 27/61 (44%), Gaps = 10/61 (16%)
Query: 159 SEELIQLDNEIG-----CSICLEKFEEGDSARKLPSCGHCFHSECVDKWLTRNGS-CPVC 212
++E +L E+G C IC E D K+ CGH + C+ W G CP C
Sbjct: 10 TQEQYELYCEMGSTFQLCKICAE----NDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 65
Query: 213 R 213
R
Sbjct: 66 R 66
>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 = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 190 CGHCFHSECVDKWLTRNGSCPV 211
C H FH C+ +WL CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
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 0.135 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,786,149
Number of Sequences: 62578
Number of extensions: 199797
Number of successful extensions: 470
Number of sequences better than 100.0: 56
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 432
Number of HSP's gapped (non-prelim): 57
length of query: 223
length of database: 14,973,337
effective HSP length: 95
effective length of query: 128
effective length of database: 9,028,427
effective search space: 1155638656
effective search space used: 1155638656
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: 49 (23.5 bits)