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= psy10659
(140 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 42.7 bits (99), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
+N+L C IC E EA C H+FC CI++ ++ +I+CP C D+ S + +L+
Sbjct: 51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 107
Query: 79 ELVQK 83
+ K
Sbjct: 108 NXINK 112
>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 = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
+N+L C IC E EA C H+FC CI++ ++ +I+CP C D+ S + +L+
Sbjct: 62 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 118
Query: 79 ELVQK 83
+ K
Sbjct: 119 NCINK 123
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMNSVFPNFLLN 78
+N+L C IC E EA C H+FC CI++ ++ +I+CP C D+ S + +L+
Sbjct: 51 ENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR---KDIKSKTYSLVLD 107
Query: 79 ELVQK 83
+ K
Sbjct: 108 NCINK 112
>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 = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 42/84 (50%), Gaps = 14/84 (16%)
Query: 10 SLKRQHSPP--------DNDLLCPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPK 60
SL PP D+ L C ICFE A I +C H +C CI K + + +CP
Sbjct: 3 SLAESRWPPGLAVMKTIDDLLRCGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPT 62
Query: 61 CSASL--PDMNSVFPNFLLNELVQ 82
C ++ PD+ + N +L+ELV+
Sbjct: 63 CCVTVTEPDLKN---NRILDELVK 83
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 40.4 bits (93), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFP-N 74
P ++ CPIC +REA T CGH FC +CI K + + KCP + L + N +FP N
Sbjct: 21 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPDN 79
Query: 75 FLLNELV 81
F E++
Sbjct: 80 FAKREIL 86
>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 = 40.0 bits (92), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFP-N 74
P ++ CPIC +REA T CGH FC +CI K + + KCP + L + N +FP N
Sbjct: 14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPDN 72
Query: 75 FLLNELV 81
F E++
Sbjct: 73 FAKREIL 79
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 20 NDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLL 77
++L+CPIC ++++ T+ C H FC CI + K CP C L S+ P+
Sbjct: 53 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 112
Query: 78 NELVQK 83
+ L+ K
Sbjct: 113 DALISK 118
>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 = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 3/67 (4%)
Query: 17 PPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFP-N 74
P ++ CPIC +REA T CGH FC +CI K + + KCP + L + N +FP N
Sbjct: 14 PLESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPDN 72
Query: 75 FLLNELV 81
F E++
Sbjct: 73 FAKREIL 79
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 20 NDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLL 77
++L+CPIC ++++ T+ C H FC CI + K CP C L S+ P+
Sbjct: 52 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 111
Query: 78 NELVQK 83
+ L+ K
Sbjct: 112 DALISK 117
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 28/48 (58%), Gaps = 3/48 (6%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKCSASL 65
+++CPIC +++++ CGH FC CI++ E KCP C S+
Sbjct: 20 EVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSV 67
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 20 NDLLCPICFELIREAHITR-CGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLL 77
++L+CPIC ++++ T+ C H FC CI + K CP C L S+ P+
Sbjct: 33 SELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLRPDPNF 92
Query: 78 NELVQK 83
+ L+ K
Sbjct: 93 DALISK 98
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 37.7 bits (86), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/60 (40%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 16 SPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCV-ELQIKCPKCSASLPDMNSVFPN 74
P + CPIC +REA T CGH FC +CI K + + KCP + L + N +FP+
Sbjct: 1 GPLGSKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPVDNEILLE-NQLFPD 59
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 37.4 bits (85), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 7/68 (10%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCIS------KCVELQIKCPKCSASLPDMNSVFPN 74
++ CPIC EL++E C H+FC +CI+ + + + CP C P ++ PN
Sbjct: 19 EVTCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYP-FGNLKPN 77
Query: 75 FLLNELVQ 82
+ +V+
Sbjct: 78 LHVANIVE 85
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 16/29 (55%), Positives = 19/29 (65%)
Query: 22 LLCPICFELIREAHITRCGHTFCFSCISK 50
L CPIC ELI+E T+C H FC C+ K
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLK 50
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 35.4 bits (80), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 3/41 (7%)
Query: 24 CPICFELIREAHITRCGHTFCFSCISKC---VELQIKCPKC 61
C +C E ++E I CGH FC +CI++ +E CP C
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 35.0 bits (79), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 26/44 (59%), Gaps = 3/44 (6%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCISKCVELQ---IKCPKC 61
+++CPIC +++++ CGH FC CI++ E KCP C
Sbjct: 20 EVICPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>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 = 34.7 bits (78), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 29/64 (45%), Gaps = 1/64 (1%)
Query: 19 DNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSASLPDMNSVFPNFLL 77
+ +C C EL+ + T C H C C+ + + Q+ CP C L + PN +L
Sbjct: 76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEIL 135
Query: 78 NELV 81
L+
Sbjct: 136 QTLL 139
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 34.7 bits (78), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 22 LLCPIC-FELIREAHITRCGHTFCFSCISKCVELQIKCPKCS 62
+LC IC LI IT C HTFC SCI + +CPKC+
Sbjct: 16 ILCSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCN 57
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 33.9 bits (76), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 19/29 (65%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCIS 49
++ CPIC EL+ E CGH+ C +CI+
Sbjct: 12 EVTCPICLELLTEPLSLDCGHSLCRACIT 40
>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 = 33.5 bits (75), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 20/29 (68%)
Query: 21 DLLCPICFELIREAHITRCGHTFCFSCIS 49
++ CPIC EL+ + CGH+FC +C++
Sbjct: 19 EVTCPICLELLTQPLSLDCGHSFCQACLT 47
>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 = 33.1 bits (74), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 24 CPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASLPDMNSVFPNFLLNELV 81
CPI EL+++ I G T+ S I K ++ K CPK +L + PN++L L+
Sbjct: 11 CPISLELMKDPVIVSTGQTYERSSIQKWLDAGHKTCPKSQETLLHAG-LTPNYVLKSLI 68
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 32.0 bits (71), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 23/48 (47%), Gaps = 7/48 (14%)
Query: 22 LLCPICFELIREAHIT----RCGHTFCFSCISKCVELQI---KCPKCS 62
L CPIC E E + CGHT C C+ K + I +CP CS
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCS 63
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKC 61
LC IC E ++ I CGH C SC++ E + + CP C
Sbjct: 336 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKC 61
LC IC E ++ I CGH C SC++ E + + CP C
Sbjct: 336 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 375
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 7/55 (12%)
Query: 18 PDNDLLCPICF----ELIREAHI---TRCGHTFCFSCISKCVELQIKCPKCSASL 65
P + CPIC E+++ + T CGH FC C+ ++ CP C +
Sbjct: 7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>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 = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKC 61
LC IC E ++ I CGH C SC++ E + + CP C
Sbjct: 334 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 31.6 bits (70), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKC 61
LC IC E ++ I CGH C SC++ E + + CP C
Sbjct: 334 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFC 373
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 44/104 (42%), Gaps = 15/104 (14%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVE-LQIKCPKCSASLP 66
S +L + P ++ C IC E++ E C HT C C VE + CP C +
Sbjct: 2 SMALPKDAIPSLSECQCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61
Query: 67 DM-------NSVFPNFLLNELVQKHKIK------SAQDSDGLRD 97
NS+ N L ++QKH + S Q+S+ + D
Sbjct: 62 SWTRYHTRRNSLV-NVELWTIIQKHYPRECKLRASGQESEEVAD 104
>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 = 0.19, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 7/51 (13%)
Query: 18 PDNDLLCPICF----ELIREAHI---TRCGHTFCFSCISKCVELQIKCPKC 61
P + CPIC E+++ + T CGH FC C+ ++ CP C
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 62
>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 = 0.22, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKC 61
LC IC E ++ I CGH C SC++ E + CP C
Sbjct: 340 LCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFC 379
>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 = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 4/44 (9%)
Query: 24 CPICFELIRE----AHITRCGHTFCFSCISKCVELQIKCPKCSA 63
CPIC E I AH+ CGH +C + ++ +CP CS
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSG 51
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 22 LLCPICFE-LIREAHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
L+C +C I I C H+FC +CI + +E CP C +
Sbjct: 16 LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 29.3 bits (64), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 3/56 (5%)
Query: 19 DNDLLCPICFELIREAHITR---CGHTFCFSCISKCVELQIKCPKCSASLPDMNSV 71
+ L CP+C E R C H F SCI +E CP C SL N+
Sbjct: 13 GSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA 68
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 29.3 bits (64), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 22 LLCPICFE-LIREAHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
L+C +C I I C H+FC +CI + +E CP C +
Sbjct: 16 LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 60
>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 = 0.84, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASL 65
LC IC E ++ I CGH C SC++ E + + CP C +
Sbjct: 26 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 69
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 28.9 bits (63), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 23/44 (52%), Gaps = 1/44 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASL 65
LC IC E ++ I CGH C SC++ E + + CP C +
Sbjct: 29 LCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 72
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 3/41 (7%)
Query: 22 LLCPICFELIRE-AHITRCGHTFCFSCISKCVELQIKCPKC 61
L C C ++RE + C H FC +C+S C+ CP C
Sbjct: 23 LRCSRCTNILREPVCLGGCEHIFCSNCVSDCI--GTGCPVC 61
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 23/49 (46%), Gaps = 7/49 (14%)
Query: 24 CPICF----ELIREAHI---TRCGHTFCFSCISKCVELQIKCPKCSASL 65
CPIC E+++ + T CGH FC C+ ++ CP C +
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 28.9 bits (63), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 22 LLCPICFE-LIREAHITRCGHTFCFSCISKCVELQIKCPKCSASL 65
L+C +C I I C H+FC +CI + +E CP C +
Sbjct: 12 LMCVLCGGYFIDATTIIECLHSFCKTCIVRYLETSKYCPICDVQV 56
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 4/45 (8%)
Query: 24 CPICFELIRE----AHITRCGHTFCFSCISKCVELQIKCPKCSAS 64
CPIC E I AH+ CGH +C + ++ +CP C S
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52
>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 = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 1/43 (2%)
Query: 24 CPICFELIREAHIT-RCGHTFCFSCISKCVELQIKCPKCSASL 65
CPIC E + C H FC+ CI++ + CP C +
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 24 CPICF----ELIREAHI---TRCGHTFCFSCISKCVELQIKCPKC 61
CPIC E+++ + T CGH FC C+ ++ CP C
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 54
Score = 28.5 bits (62), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 7/45 (15%)
Query: 24 CPICF----ELIREAHI---TRCGHTFCFSCISKCVELQIKCPKC 61
CPIC E+++ + T CGH FC C+ ++ CP C
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 119
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 36/80 (45%), Gaps = 5/80 (6%)
Query: 24 CPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASL--PDMNSVFPNFL--LN 78
C IC ++ + T C H FC CI +C+++ CP C D+ S +FL LN
Sbjct: 26 CQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCRYPCFPTDLESPVKSFLNILN 85
Query: 79 ELVQKHKIKSAQDSDGLRDF 98
L+ K + + L +
Sbjct: 86 SLMVKCPAQDCNEEVSLEKY 105
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 23 LCPICFELIREAHITRCGHTFCFSCISKCVELQIK-CPKCSASL 65
LC IC E ++ I CGH C SC++ E + CP C +
Sbjct: 28 LCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEI 71
>pdb|2CS3|A Chain A, Solution Structure Of The Zf-C3hc4 Domain Of Human
Kiaa1865
Length = 93
Score = 27.7 bits (60), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 19/41 (46%), Gaps = 4/41 (9%)
Query: 19 DNDLLCPICFELIREAHITRC----GHTFCFSCISKCVELQ 55
L C IC E + + H +C H FCF C + ++ Q
Sbjct: 13 SGPLCCTICHERLEDTHFVQCPSVPSHKFCFPCSRESIKAQ 53
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 26.9 bits (58), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 20/46 (43%), Gaps = 1/46 (2%)
Query: 24 CPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPDMN 69
C IC + R I C H+FC CI K + CP C + N
Sbjct: 18 CCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGAN 62
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 124
Score = 26.6 bits (57), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 24 CPICFELIREAHITRCGHTFCFSCISKCVELQI-KCPKCSASL 65
C C EL+ T C H C C+ + Q+ CP C L
Sbjct: 55 CICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 26.2 bits (56), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 23 LCPICFELIR---EAHITRCGHTFCFSCISKCVELQIKCPKCS 62
LC +C E + E I C H F C+ K +E++ CP C+
Sbjct: 17 LCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCN 59
>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 = 25.4 bits (54), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 8 SRSLKRQHSPPDNDLLCPICFELIREAHITRCGHTFCFSCISKCVELQIKCPKCSASLPD 67
+R L+ + +LC +C E + CGHT C C S +LQ CP C + +
Sbjct: 5 TRVLQEKLRKLKEAMLCMVCCEEEINSTFCPCGHTVC--CESCAAQLQ-SCPVCRSRVEH 61
Query: 68 MNSVF 72
+ V+
Sbjct: 62 VQHVY 66
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
0.321 0.133 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,585,659
Number of Sequences: 62578
Number of extensions: 116560
Number of successful extensions: 388
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 59
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 326
Number of HSP's gapped (non-prelim): 72
length of query: 140
length of database: 14,973,337
effective HSP length: 89
effective length of query: 51
effective length of database: 9,403,895
effective search space: 479598645
effective search space used: 479598645
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: 46 (22.3 bits)