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= 026323
(240 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 6/58 (10%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTM 85
+C ICL+ +PV T C H++C C+ K L+ + QCP+CK DI+ ++
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGP------SQCPLCKNDITKRSL 73
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 41.2 bits (95), Expect = 5e-04, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 34/63 (53%), Gaps = 7/63 (11%)
Query: 15 ASAATGS-ENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQC 73
+S ++G+ EN C++CL++ +PV+ CGH +C CI +W L D C
Sbjct: 2 SSGSSGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWE----DLERDF--PC 55
Query: 74 PVC 76
PVC
Sbjct: 56 PVC 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 33/90 (36%), Gaps = 9/90 (10%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
C IC ++ + V C H +C CI +W+ +CP+C+ DI T
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMK---------RKIECPICRKDIKSKTYSL 104
Query: 88 LYGRGQTPTESEPEGKVSHRGTVIPPRPPA 117
+ + +V R V+ A
Sbjct: 105 VLDNXINKMVNNLSSEVKERRIVLIRERKA 134
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 39.3 bits (90), Expect = 0.002, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 10/53 (18%)
Query: 29 DCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
+C IC+D D ++ C H +C CI KW SD H CP+C+ ++
Sbjct: 17 ECCICMDGRADLILP-CAHSFCQKCIDKW---------SDRHRNCPICRLQMT 59
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 33/90 (36%), Gaps = 9/90 (10%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
C IC ++ + V C H +C CI +W+ +CP+C+ DI T
Sbjct: 54 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMK---------RKIECPICRKDIKSKTYSL 104
Query: 88 LYGRGQTPTESEPEGKVSHRGTVIPPRPPA 117
+ + +V R V+ A
Sbjct: 105 VLDNCINKMVNNLSSEVKERRIVLIRERKA 134
>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 = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 20/90 (22%), Positives = 33/90 (36%), Gaps = 9/90 (10%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMVP 87
C IC ++ + V C H +C CI +W+ +CP+C+ DI T
Sbjct: 65 LQCIICSEYFIEAVTLNCAHSFCSYCINEWMK---------RKIECPICRKDIKSKTYSL 115
Query: 88 LYGRGQTPTESEPEGKVSHRGTVIPPRPPA 117
+ + +V R V+ A
Sbjct: 116 VLDNCINKMVNNLSSEVKERRIVLIRERKA 145
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 37.7 bits (86), Expect = 0.006, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 6/51 (11%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
C ICLD PV CGH +C CI + +CP+CK +
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFF------KCPLCKTSV 67
>pdb|1Z6U|A Chain A, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
pdb|1Z6U|B Chain B, Np95-Like Ring Finger Protein Isoform B [homo Sapiens]
Length = 150
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 35/96 (36%), Gaps = 20/96 (20%)
Query: 4 EQYFARE-------WKSIASAATGSENY----NGCFDCNICLDFAYDPVVTLCGHLYCWP 52
+Q+ RE W + S N+ F C C + Y PV T C H C
Sbjct: 44 QQHLIREDCQNQKLWDEVLSHLVEGPNFLKKLEQSFMCVCCQELVYQPVTTECFHNVCKD 103
Query: 53 CIYKWLHVQSASLASDEHPQCPVCKADISHT-TMVP 87
C+ + Q S CP C+ D+ M+P
Sbjct: 104 CLQRSFKAQVFS--------CPACRHDLGQNYIMIP 131
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 382
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 382
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 380
>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 = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 380
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3 Ubiquitin-
Protein Ligase Uhrf1
Length = 124
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 8/56 (14%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
F C C + + P+ T+C H C C+ + Q S CP C+ D+ +
Sbjct: 53 FQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFS--------CPACRYDLGRS 100
>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 = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 31/59 (52%), Gaps = 9/59 (15%)
Query: 30 CNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC-KADISHTTMV 86
C IC D D VV CG+ YC CI ++A L SDEH CP C + D+S ++
Sbjct: 16 CLICKDIMTDAVVIPCCGNSYCDECI------RTALLESDEH-TCPTCHQNDVSPDALI 67
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 34.3 bits (77), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 21/44 (47%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHP 71
C IC DPV T C HL+C CI + L V + S +P
Sbjct: 24 ISCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYP 67
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 34.3 bits (77), Expect = 0.070, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 20/47 (42%), Gaps = 6/47 (12%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
C ICLD PV CGH +C CI + +CP+C
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFF------KCPLC 63
>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
Retinoblastoma-Binding Protein 6
Length = 74
Score = 33.9 bits (76), Expect = 0.083, Method: Composition-based stats.
Identities = 24/54 (44%), Positives = 29/54 (53%), Gaps = 9/54 (16%)
Query: 30 CNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC-KADIS 81
C IC D D VV CG+ YC CI ++A L SDEH CP C + D+S
Sbjct: 18 CLICKDIMTDAVVIPCCGNSYCDECI------RTALLESDEH-TCPTCHQNDVS 64
>pdb|1T1H|A Chain A, Nmr Solution Structure Of The U Box Domain From Atpub14,
An Armadillo Repeat Containing Protein From Arabidopsis
Thaliana
Length = 78
Score = 33.9 bits (76), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 27/70 (38%), Gaps = 8/70 (11%)
Query: 20 GSENYNGCFDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKAD 79
GS + F C I L+ DPV+ G Y I KWL H CP +
Sbjct: 1 GSPEFPEYFRCPISLELMKDPVIVSTGQTYERSSIQKWLDAG--------HKTCPKSQET 52
Query: 80 ISHTTMVPLY 89
+ H + P Y
Sbjct: 53 LLHAGLTPNY 62
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 33.9 bits (76), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 8/55 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTT 84
C IC++ +PV C H C PC V+ ASL CP C+ +S T
Sbjct: 18 CGICMEILVEPVTLPCNHTLCKPCFQS--TVEKASLC------CPFCRRRVSSWT 64
>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 = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W + CP C+ +I T
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAW--------QESDGQGCPFCRCEIKGT 386
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 75
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W E CP C+ +I T
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSW--------QESEGQGCPFCRCEIKGT 72
>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 = 32.0 bits (71), Expect = 0.33, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 21/51 (41%), Gaps = 13/51 (25%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
C +CLD A V CGHL C C + CP+C+A +
Sbjct: 16 CKVCLDRAVSIVFVPCGHLVCAEC-------------APGLQLCPICRAPV 53
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 32/136 (23%), Positives = 48/136 (35%), Gaps = 23/136 (16%)
Query: 25 NGCFDCNICLDFAYDPVV--------TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
+G C IC+D Y +V T CGH++C C+ L + CP C
Sbjct: 5 SGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT---------CPTC 54
Query: 77 KADISHTTMVPLY---GRGQTPTESEPEGKVSHRGTVIPPRPP--AFGNQALLYPTSNTG 131
+ I+H P+Y G P + ++ G +I F +Q L N
Sbjct: 55 RKKINHKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNAN 114
Query: 132 QQLPYRNPYQSQNYDP 147
R + Y P
Sbjct: 115 TCPTCRKKINHKRYHP 130
Score = 30.4 bits (67), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 18/73 (24%)
Query: 25 NGCFDCNICLDFAYDPVV--------TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
+G C IC+D Y +V T CGH++C C+ L + CP C
Sbjct: 70 SGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT---------CPTC 119
Query: 77 KADISHTTMVPLY 89
+ I+H P+Y
Sbjct: 120 RKKINHKRYHPIY 132
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 31.6 bits (70), Expect = 0.39, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 8/48 (16%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV 75
++C ICL + V T CGH +C CI K + D +CPV
Sbjct: 7 YECPICLMALREAVQTPCGHRFCKACIIKSIR--------DAGHKCPV 46
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKA 78
C ICL+ +PV C H +C CI L+ +S + +D CPVC+
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACI--TLNYES-NRNTDGKGNCPVCRV 67
>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 = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 18/73 (24%)
Query: 25 NGCFDCNICLDFAYDPVV--------TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
+G C IC+D Y +V T CGH++C C+ L + CP C
Sbjct: 8 SGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT---------CPTC 57
Query: 77 KADISHTTMVPLY 89
+ I+H P+Y
Sbjct: 58 RKKINHKRYHPIY 70
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 31.6 bits (70), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 13/71 (18%)
Query: 15 ASAATGSENYNGC-FDCNICL-DFAYDPVVTL--CGHLYCWPCIYKWLHVQSASLASDEH 70
+S ++G+E + G +C +C D+A V C HL+ CI WL ++H
Sbjct: 2 SSGSSGTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWL---------EQH 52
Query: 71 PQCPVCKADIS 81
CPVC+ ++
Sbjct: 53 DSCPVCRKSLT 63
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 8/48 (16%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPV 75
++C ICL + V T CGH +C CI K + D +CPV
Sbjct: 26 YECPICLMALREAVQTPCGHRFCKACIIKSIR--------DAGHKCPV 65
>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger)" Domain Of Tnf Receptor-Associated Factor 3
Length = 66
Score = 31.2 bits (69), Expect = 0.52, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 22/53 (41%), Gaps = 8/53 (15%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
+ C C P T CGH +C C+ A+L S P+C C+ I
Sbjct: 16 YKCEKCHLVLCSPKQTECGHRFCESCM--------AALLSSSSPKCTACQESI 60
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.2 bits (69), Expect = 0.56, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 28/66 (42%), Gaps = 18/66 (27%)
Query: 25 NGCFDCNICLDFAYDPVV--------TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
+G C IC+D Y +V T CGH++C C+ L + CP C
Sbjct: 13 SGTVSCPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT---------CPTC 62
Query: 77 KADISH 82
+ I+H
Sbjct: 63 RKKINH 68
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C IC + D + CGHL C C+ W CP C+ +I T
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQG--------CPFCRCEIKGT 74
>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 = 30.8 bits (68), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 27/60 (45%), Gaps = 9/60 (15%)
Query: 28 FDCNICLDFAYDPVVT-LCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
F C IC + D + C L C+ CI +WL Q A QCP C+A + +V
Sbjct: 23 FRCFICXEKLRDARLCPHCSKLCCFSCIRRWLTEQRA--------QCPHCRAPLQLRELV 74
>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 = 30.4 bits (67), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 21/48 (43%), Gaps = 3/48 (6%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCK 77
C ICL+ P+ CGH +C C+ S+ CPVC+
Sbjct: 22 CPICLELLTQPLSLDCGHSFCQACLTAN---HKKSMLDKGESSCPVCR 66
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 2/47 (4%)
Query: 30 CNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVC 76
C ICL+ +P+ CGH C CI + + A + CPVC
Sbjct: 15 CPICLELLTEPLSLDCGHSLCRACI--TVSNKEAVTSMGGKSSCPVC 59
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 30.0 bits (66), Expect = 1.2, Method: Composition-based stats.
Identities = 20/72 (27%), Positives = 27/72 (37%), Gaps = 22/72 (30%)
Query: 30 CNICLDF---AYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISHTTMV 86
C ICL D C HL+ C+ +WL +CP+C+ DI
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNK---------KCPICRVDI------ 61
Query: 87 PLYGRGQTPTES 98
Q P+ES
Sbjct: 62 ----EAQLPSES 69
>pdb|3HCT|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
P1 Space Group
pdb|3HCU|A Chain A, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
pdb|3HCU|C Chain C, Crystal Structure Of Traf6 In Complex With Ubc13 In The
C2 Space Group
Length = 118
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWL 58
++C ICL + V T CGH +C CI K +
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSI 49
>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 = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%), Gaps = 10/52 (19%)
Query: 30 CNICLDFAYDPVVTL-CGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADI 80
C ICL+ + + L C H +C+ CI +W+ ++P CP+CK +
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIR---------QNPTCPLCKVPV 50
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 29/68 (42%), Gaps = 18/68 (26%)
Query: 30 CNICLDFAYDPVV--------TLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADIS 81
C IC+D Y +V T CGH++C C+ L + CP C+ I+
Sbjct: 6 CPICMD-GYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANT---------CPTCRKKIN 55
Query: 82 HTTMVPLY 89
H P+Y
Sbjct: 56 HKRYHPIY 63
>pdb|3HCS|A Chain A, Crystal Structure Of The N-Terminal Domain Of Traf6
pdb|3HCS|B Chain B, Crystal Structure Of The N-Terminal Domain Of Traf6
Length = 170
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 18/31 (58%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWL 58
++C ICL + V T CGH +C CI K +
Sbjct: 19 YECPICLMALREAVQTPCGHRFCKACIIKSI 49
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 3/46 (6%)
Query: 29 DCNICLDFAYDPVVTLCGHLYCWPCIY--KWLHVQSASLASDEHPQ 72
+C ICL PV C H++C+ C+ WL + A L E P+
Sbjct: 17 ECAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCA-LCRQEIPE 61
>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 = 28.5 bits (62), Expect = 3.6, Method: Composition-based stats.
Identities = 16/58 (27%), Positives = 22/58 (37%), Gaps = 20/58 (34%)
Query: 30 CNICLDFAYDPVVTLCGHLY----CWPCIYKWLHVQSASLASDEHPQCPVCKADISHT 83
C +C+D V CGHL C P + K CP+C++ I T
Sbjct: 27 CKVCMDKEVSIVFIPCGHLVVCKDCAPSLRK----------------CPICRSTIKGT 68
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 17/42 (40%)
Query: 28 FDCNICLDFAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDE 69
F C IC +PVVT C H +C C + D+
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYICDQ 57
>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 = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 10/54 (18%)
Query: 30 CNICLD-FAYDPVVTLCGHLYCWPCIYKWLHVQSASLASDEHPQCPVCKADISH 82
C IC + F ++ C H YC CI K+L ++ QCP C ++
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKT---------QCPTCCVTVTE 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
0.319 0.135 0.439
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,828,637
Number of Sequences: 62578
Number of extensions: 344060
Number of successful extensions: 747
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 702
Number of HSP's gapped (non-prelim): 48
length of query: 240
length of database: 14,973,337
effective HSP length: 96
effective length of query: 144
effective length of database: 8,965,849
effective search space: 1291082256
effective search space used: 1291082256
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)