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= 037842
(78 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 47.8 bits (112), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 37/74 (50%), Gaps = 7/74 (9%)
Query: 3 ESRNGAVVVGEVRFTCGICLDTMKEES-------STKCGHVFCKSCIVDAIRLQGKCPTC 55
R + +G +C IC+D E ST+CGHVFC C+ D+++ CPTC
Sbjct: 60 HKRYHPIYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTC 119
Query: 56 RTRMSVRSIRRIFF 69
R +++ + I+
Sbjct: 120 RKKINHKRYHPIYI 133
Score = 45.4 bits (106), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 25/70 (35%), Positives = 38/70 (54%), Gaps = 9/70 (12%)
Query: 7 GAVVVGEVRFTCGICLDTMKEES-------STKCGHVFCKSCIVDAIRLQGKCPTCRTRM 59
GA+ G V +C IC+D E ST+CGHVFC C+ D+++ CPTCR ++
Sbjct: 1 GAMGSGTV--SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 58
Query: 60 SVRSIRRIFF 69
+ + I+
Sbjct: 59 NHKRYHPIYI 68
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 45.8 bits (107), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 16 FTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ---GKCPTCRTRMSVRSIRR 66
C ICL+ +KE STKC H+FCK C++ + + +CP C+ ++ RS++
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQE 75
>pdb|2CKL|B Chain B, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 165
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 33/53 (62%), Gaps = 3/53 (5%)
Query: 16 FTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGK-CPTCRTRM-SVRSIR 65
C ICLD +K +TK C H FC CI+ A+R K CPTCR ++ S RS+R
Sbjct: 55 LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLR 107
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 45.4 bits (106), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 26/54 (48%), Positives = 33/54 (61%), Gaps = 3/54 (5%)
Query: 15 RFTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGK-CPTCRTRM-SVRSIR 65
C ICLD +K +TK C H FC CI+ A+R K CPTCR ++ S RS+R
Sbjct: 53 ELMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLR 106
>pdb|2H0D|B Chain B, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 100
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 26/53 (49%), Positives = 33/53 (62%), Gaps = 3/53 (5%)
Query: 16 FTCGICLDTMKEESSTK-CGHVFCKSCIVDAIRLQGK-CPTCRTRM-SVRSIR 65
C ICLD +K +TK C H FC CI+ A+R K CPTCR ++ S RS+R
Sbjct: 35 LMCPICLDMLKNTMTTKECLHRFCADCIITALRSGNKECPTCRKKLVSKRSLR 87
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQG-KCPT 54
E ++ C ICL ++E T CGH FCK+CI+ +IR G KCP
Sbjct: 23 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 65
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQG-KCPT 54
E ++ C ICL ++E T CGH FCK+CI+ +IR G KCP
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>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 = 45.1 bits (105), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/43 (48%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQG-KCPT 54
E ++ C ICL ++E T CGH FCK+CI+ +IR G KCP
Sbjct: 16 ESKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 58
>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 = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 TCGICLDTMKEES-------STKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69
+C IC+D E ST+CGHVFC C+ D+++ CPTCR +++ + I+
Sbjct: 12 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 71
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 44.7 bits (104), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/60 (35%), Positives = 33/60 (55%), Gaps = 7/60 (11%)
Query: 17 TCGICLDTMKEES-------STKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69
+C IC+D E ST+CGHVFC C+ D+++ CPTCR +++ + I+
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHKRYHPIYI 64
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 43.9 bits (102), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 20/41 (48%), Positives = 27/41 (65%), Gaps = 1/41 (2%)
Query: 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQG-KCPT 54
++ C ICL ++E T CGH FCK+CI+ +IR G KCP
Sbjct: 6 KYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHKCPV 46
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 42.4 bits (98), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 30/51 (58%), Gaps = 7/51 (13%)
Query: 17 TCGICLDTMKEES-------STKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60
+C IC+D E ST+CGHVFC C+ D+++ CPTCR +++
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKIN 67
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 39.3 bits (90), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 27/55 (49%), Gaps = 6/55 (10%)
Query: 17 TCGICLDTMKEESSTKCGHVFCKSCIVDAIRL------QGKCPTCRTRMSVRSIR 65
TC ICL+ +KE S C H FC++CI +G CP CR +++
Sbjct: 21 TCPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVPYPFGNLK 75
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 30/53 (56%), Gaps = 3/53 (5%)
Query: 6 NGAVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIV---DAIRLQGKCPTC 55
+GA+ +V +C +CL+ +KE +CGH FCK+CI + + CP C
Sbjct: 6 SGALENLQVEASCSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>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 = 37.0 bits (84), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 6/57 (10%)
Query: 15 RFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRL------QGKCPTCRTRMSVRSIR 65
TC ICL+ + + S CGH FC++C+ + + CP CR +IR
Sbjct: 19 EVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPENIR 75
>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 = 36.2 bits (82), Expect = 0.005, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRM 59
C IC + K+ CGH+ C SC+ +G+ CP CR +
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ---GKCPTCRTRMSVRSIR 65
C ICLD +++ + CGH FC CI KCP C+T + +IR
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAIR 73
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 35.8 bits (81), Expect = 0.006, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRM 59
C IC + K+ CGH+ C SC+ +G+ CP CR +
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 377
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 35.8 bits (81), Expect = 0.006, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRM 59
C IC + K+ CGH+ C SC+ +G+ CP CR +
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 379
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 35.8 bits (81), Expect = 0.006, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRM 59
C IC + K+ CGH+ C SC+ +G+ CP CR +
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCRCEI 379
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 17 TCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCR 56
+C IC + + T C H+FC+ CI+ +++ G CP+CR
Sbjct: 25 SCQICEHILADPVETSCKHLFCRICILRCLKVMGSYCPSCR 65
>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 = 35.0 bits (79), Expect = 0.012, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRM 59
C IC + K+ CGH+ C SC+ G+ CP CR +
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCRCEI 383
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 7/58 (12%)
Query: 15 RFTCGICLDTMKEESSTKCGHVFCKSCI-------VDAIRLQGKCPTCRTRMSVRSIR 65
TC ICL+ + E S CGH C++CI V ++ + CP C S ++
Sbjct: 12 EVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVCGISYSFEHLQ 69
>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 = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 26/53 (49%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63
V E C IC + E + C H FC CI + ++ + +CP CR + ++
Sbjct: 60 VLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSKT 112
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCRTRMS 60
CGIC++ + E + C H CK C + CP CR R+S
Sbjct: 18 CGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLCCPFCRRRVS 61
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCR 56
V E C IC + E + C H FC CI + ++ + +CP CR
Sbjct: 49 VLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 21/42 (50%)
Query: 14 VRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTC 55
+ F C IC + TKC H FC+SC ++ R +C C
Sbjct: 14 IPFRCFICRQAFQNPVVTKCRHYFCESCALEHFRATPRCYIC 55
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCR 56
V E C IC + E + C H FC CI + ++ + +CP CR
Sbjct: 49 VLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 18 CGICLDTMKEESS-TKCGHVFCKSCIVDAIRLQGKCPTCR 56
C IC + + ++ T+C H FCKSCIV +CP C
Sbjct: 18 CSICKGYLIDATTITECLHTFCKSCIVRHFYYSNRCPKCN 57
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 20/42 (47%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRM 59
C ICL T S C HVFC C+ A L +C CR +
Sbjct: 18 CAICLQTCVHPVSLPCKHVFCYLCVKGASWLGKRCALCRQEI 59
>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 = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 32/69 (46%), Gaps = 11/69 (15%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ-GKCPTCRTRMS----------V 61
E F C C + + + +T+C H CK C+ + + Q CP CR + +
Sbjct: 76 EQSFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFSCPACRHDLGQNYIMIPNEIL 135
Query: 62 RSIRRIFFP 70
+++ +FFP
Sbjct: 136 QTLLDLFFP 144
>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 = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 18/40 (45%), Gaps = 1/40 (2%)
Query: 18 CGICL-DTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCR 56
C ICL D + C H FC CI IR CP C+
Sbjct: 8 CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCR 56
+G C IC + K+ CGH+ C SC+ +G+ CP CR
Sbjct: 20 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 66
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCR 56
+G C IC + K+ CGH+ C SC+ +G+ CP CR
Sbjct: 23 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTSWQESEGQGCPFCR 69
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 16/25 (64%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCI 42
C ICLD +++ + CGH FC CI
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCI 47
>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 = 0.51, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 33 CGHVFCKSCIVDAIRLQGKCPTCRTRMSVRS 63
C H+F SCIV + CP CR ++ ++
Sbjct: 36 CNHLFHDSCIVPWLEQHDSCPVCRKSLTGQN 66
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 11 VGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGK-CPTCR 56
+G C IC + K+ CGH+ C SC+ G+ CP CR
Sbjct: 22 MGSTFQLCKICAENDKDVKIEPCGHLMCTSCLTAWQESDGQGCPFCR 68
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 23/48 (47%), Gaps = 3/48 (6%)
Query: 18 CGICLDTMKEESSTK---CGHVFCKSCIVDAIRLQGKCPTCRTRMSVR 62
C ICL ++E + C H+F + C+ + KCP CR + +
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQ 64
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 33 CGHVFCKSCI-VDAIRLQGKCPTCRTRMSVRSIRRIFF 69
CGH C+SC+ + +R G CP C T + + R F
Sbjct: 26 CGHTLCESCVDLLFVRGAGNCPECGTPLRKSNFRVQLF 63
>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 = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/53 (41%), Positives = 24/53 (45%), Gaps = 6/53 (11%)
Query: 17 TCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69
TC +CLD CGH+ C C A LQ CP CR VRS R F
Sbjct: 15 TCKVCLDRAVSIVFVPCGHLVCAEC---APGLQ-LCPICRA--PVRSRVRTFL 61
>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 = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 7/56 (12%)
Query: 16 FTCGICLDTMKEESSTKCGH-VFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFFP 70
C +C + + CGH V C+SC A +LQ CP CR+R V ++ ++ P
Sbjct: 19 MLCMVCCEEEINSTFCPCGHTVCCESC---AAQLQS-CPVCRSR--VEHVQHVYLP 68
>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 = 28.1 bits (61), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 19/39 (48%), Gaps = 1/39 (2%)
Query: 18 CGICLDTMKEESST-KCGHVFCKSCIVDAIRLQGKCPTC 55
CGIC + +C H +C CI + + +CPTC
Sbjct: 25 CGICFEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 21/43 (48%), Gaps = 1/43 (2%)
Query: 18 CGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMS 60
C IC+D + + C H FC+ CI CP CR +M+
Sbjct: 18 CCICMDG-RADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMT 59
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 32 KCGHVFCKSCIVDAIRLQGKCPTC 55
+C H FCK+CIV + CP C
Sbjct: 33 ECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 32 KCGHVFCKSCIVDAIRLQGKCPTC 55
+C H FCK+CIV + CP C
Sbjct: 33 ECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 32 KCGHVFCKSCIVDAIRLQGKCPTC 55
+C H FCK+CIV + CP C
Sbjct: 29 ECLHSFCKTCIVRYLETSKYCPIC 52
>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 = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 2/50 (4%)
Query: 6 NGAVVVGEVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQGKCPTC 55
+G V E ++ C C + T+CGH FC+SC+ A L P C
Sbjct: 6 SGFVKTVEDKYKCEKCHLVLCSPKQTECGHRFCESCM--AALLSSSSPKC 53
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 124
Score = 27.3 bits (59), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAIRLQ-GKCPTCRTRM 59
E F C C + + +T C H CK C+ + R Q CP CR +
Sbjct: 50 EETFQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFSCPACRYDL 97
>pdb|3KNV|A Chain A, Crystal Structure Of The Ring And First Zinc Finger
Domains Of Traf2
Length = 141
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 8/34 (23%), Positives = 17/34 (50%)
Query: 13 EVRFTCGICLDTMKEESSTKCGHVFCKSCIVDAI 46
E ++ C C + ++ +CGH +C C+ +
Sbjct: 29 EAKYLCSACRNVLRRPFQAQCGHRYCSFCLASIL 62
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/68 (25%), Positives = 30/68 (44%), Gaps = 5/68 (7%)
Query: 6 NGAVVVGEVRFTCGICLDTMK---EESSTKCGHVFCKSCIVDAIRLQGKCPTCRTRMSVR 62
+G V + C +CL+ K E C H F + C++ + ++ CP C M V
Sbjct: 6 SGKVKELNLHELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC--NMPVL 63
Query: 63 SIRRIFFP 70
+ ++ P
Sbjct: 64 QLAQLSGP 71
>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 = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 21 CLDTMKEESSTK--CGHVFCKSCIVDAIRLQGKCPTCR 56
C + +K + +T+ C H F K C+ ++ G CP CR
Sbjct: 47 CSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|1JM7|B Chain B, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 117
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 2/33 (6%)
Query: 33 CGHVFCKSCIVDAIRLQGKCPTCRTRMSVRSIR 65
C H+FC +C+ D I CP C T ++ ++
Sbjct: 41 CEHIFCSNCVSDCI--GTGCPVCYTPAWIQDLK 71
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/48 (27%), Positives = 21/48 (43%), Gaps = 4/48 (8%)
Query: 18 CGICLDTMKEESSTK----CGHVFCKSCIVDAIRLQGKCPTCRTRMSV 61
C +CL +++ + CGH F C+ + CP CR + V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55
>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 = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 27/54 (50%), Gaps = 7/54 (12%)
Query: 17 TCGICLDTMKEESSTKCGH-VFCKSCIVDAIRLQGKCPTCRTRMSVRSIRRIFF 69
TC +C+D CGH V CK C ++R KCP CR+ +++ R F
Sbjct: 26 TCKVCMDKEVSIVFIPCGHLVVCKDC-APSLR---KCPICRS--TIKGTVRTFL 73
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 28/59 (47%), Gaps = 7/59 (11%)
Query: 16 FTCGICLDTMKEESS----TKCGHVFCKSCI--VDAIRLQG-KCPTCRTRMSVRSIRRI 67
C IC+++ EE CGH C+ C+ + A + G +CP C + S+ ++
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQL 74
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
0.328 0.137 0.444
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,995,475
Number of Sequences: 62578
Number of extensions: 52734
Number of successful extensions: 171
Number of sequences better than 100.0: 70
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 115
Number of HSP's gapped (non-prelim): 71
length of query: 78
length of database: 14,973,337
effective HSP length: 47
effective length of query: 31
effective length of database: 12,032,171
effective search space: 372997301
effective search space used: 372997301
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 45 (21.9 bits)