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= 027504
(222 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 = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCK 72
EC IC EL ++P+ T C H+FC C+ + L+ +CP+CK
Sbjct: 22 LECPICLELIKEPVSTKCDHIFCKFCMLKLLNQKKGPSQCPLCK 65
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 45.4 bits (106), Expect = 2e-05, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 23/41 (56%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVC 71
C++C E ++P++ CGH FC C+ RW CPVC
Sbjct: 18 CSVCLEYLKEPVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 40.0 bits (92), Expect = 0.001, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 26/50 (52%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKL 80
C IC ++ Q P+ CGH FC C+ + +CP+CK V++ +
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKNAI 72
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 380
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 337 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 380
>pdb|2ECI|A Chain A, Solution Structure Of The Ring Domain Of The Human Tnf
Receptor-Associated Factor 6 Protein
Length = 86
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVP 82
+EC IC ++ + T CGH FC C+ + + H +CPV ++ E +L P
Sbjct: 26 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH--KCPVDNEILLENQLFP 77
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 378
>pdb|2JMD|A Chain A, Solution Structure Of The Ring Domain Of Human Traf6
Length = 63
Score = 39.7 bits (91), Expect = 0.001, Method: Composition-based stats.
Identities = 18/54 (33%), Positives = 29/54 (53%), Gaps = 2/54 (3%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVP 82
+EC IC ++ + T CGH FC C+ + + H +CPV ++ E +L P
Sbjct: 7 YECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH--KCPVDNEILLENQLFP 58
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 335 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 378
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 341 CKICAENDKDVKIEPCGHLMCTSCLTAW--QESDGQGCPFCRCEIK 384
>pdb|4A49|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b Complex
Length = 84
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 30 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 73
>pdb|2K4D|A Chain A, E2-C-Cbl Recognition Is Necessary But Not Sufficient For
Ubiquitination Activity
Length = 83
Score = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 27 CKICAENDKDVKIEPCGHLMCTSCLTSW--QESEGQGCPFCRCEIK 70
>pdb|2LDR|A Chain A, Solution Structure Of Helix-Ring Domain Of Cbl-B In The
Tyr363 Phosphorylated Form
Length = 82
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 23/46 (50%), Gaps = 2/46 (4%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E +D + CGHL C CL W S Q CP C+ ++
Sbjct: 29 CKICAENDKDVKIEPCGHLMCTSCLTAW--QESDGQGCPFCRCEIK 72
>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 = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 28/56 (50%), Gaps = 2/56 (3%)
Query: 27 GGFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVP 82
+EC IC ++ + T CGH FC C+ + + H CPV ++ E +L P
Sbjct: 17 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGHK--CPVDNEILLENQLFP 70
>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 = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 29/56 (51%), Gaps = 2/56 (3%)
Query: 27 GGFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVP 82
+EC IC ++ + T CGH FC C+ + + H +CPV ++ E +L P
Sbjct: 17 SKYECPICLMALREAVQTPCGHRFCKACIIKSIRDAGH--KCPVDNEILLENQLFP 70
>pdb|1RMD|A Chain A, Rag1 Dimerization Domain
Length = 116
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 23 ANDAGGFECNICFELAQDPIVTLCGHLFCWPCLYRWL 59
A+ C IC + DP+ T C HLFC C+ R L
Sbjct: 18 AHFVKSISCQICEHILADPVETSCKHLFCRICILRCL 54
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 35.8 bits (81), Expect = 0.019, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 21/41 (51%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVC 71
C IC ++ Q P+ CGH FC C+ + +CP+C
Sbjct: 23 CPICLDILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|3FL2|A Chain A, Crystal Structure Of The Ring Domain Of The E3
Ubiquitin- Protein Ligase Uhrf1
Length = 124
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 21/44 (47%), Gaps = 2/44 (4%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCK 72
F+C C EL PI T+C H C CL R S CP C+
Sbjct: 53 FQCICCQELVFRPITTVCQHNVCKDCLDRSFRAQVFS--CPACR 94
>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 = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 21/63 (33%), Positives = 26/63 (41%), Gaps = 3/63 (4%)
Query: 23 ANDAGGFECNICFELAQDPIVTLCGHLFCWPCL---YRWLHHHSHSQECPVCKAVVQEEK 79
N C IC EL P+ CGH FC CL ++ CPVC+ Q E
Sbjct: 14 VNVKEEVTCPICLELLTQPLSLDCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQPEN 73
Query: 80 LVP 82
+ P
Sbjct: 74 IRP 76
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 24 NDA--GGFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
ND +C IC E + + C H FC C+ W+ ECP+C+ ++
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI---ECPICRKDIK 98
>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 = 34.7 bits (78), Expect = 0.043, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 26 AGGFECNICF----ELAQDP---IVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEE 78
+G C IC E+ Q+ + T CGH+FC CL L ++ CP C+ + +
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---KNANTCPTCRKKINHK 64
Query: 79 KLVPLY 84
+ P+Y
Sbjct: 65 RYHPIY 70
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVC 71
F C IC + Q+P+VT C H FC C L H + C +C
Sbjct: 16 FRCFICRQAFQNPVVTKCRHYFCESC---ALEHFRATPRCYIC 55
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 23/43 (53%), Gaps = 4/43 (9%)
Query: 30 ECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCK 72
EC IC + D I+ C H FC C+ +W H + CP+C+
Sbjct: 17 ECCICMDGRADLILP-CAHSFCQKCIDKWSDRH---RNCPICR 55
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 10/69 (14%)
Query: 23 ANDAGGFECNICF----ELAQD---PIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVV 75
A +G C IC E+ Q+ + T CGH+FC CL L ++ CP C+ +
Sbjct: 2 AMGSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---KNANTCPTCRKKI 58
Query: 76 QEEKLVPLY 84
++ P+Y
Sbjct: 59 NHKRYHPIY 67
Score = 34.3 bits (77), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 26 AGGFECNICF----ELAQD---PIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEE 78
+G C IC E+ Q+ + T CGH+FC CL L ++ CP C+ + +
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---KNANTCPTCRKKINHK 126
Query: 79 KLVPLY 84
+ P+Y
Sbjct: 127 RYHPIY 132
>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 = 0.048, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 27/60 (45%), Gaps = 5/60 (8%)
Query: 19 VGNSANDA--GGFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
V + ND +C IC E + + C H FC C+ W+ ECP+C+ ++
Sbjct: 53 VLSHMNDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI---ECPICRKDIK 109
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 5/55 (9%)
Query: 24 NDA--GGFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
ND +C IC E + + C H FC C+ W+ ECP+C+ ++
Sbjct: 47 NDVLENELQCIICSEYFIEAVTLNCAHSFCSYCINEWMKRKI---ECPICRKDIK 98
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.9 bits (76), Expect = 0.069, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 30/61 (49%), Gaps = 10/61 (16%)
Query: 31 CNICF----ELAQDP---IVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPL 83
C IC E+ Q+ + T CGH+FC CL L ++ CP C+ + ++ P+
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---KNANTCPTCRKKINHKRYHPI 62
Query: 84 Y 84
Y
Sbjct: 63 Y 63
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 22/46 (47%), Gaps = 3/46 (6%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCL---YRWLHHHSHSQECPVCKA 73
C IC EL ++P+ C H FC C+ Y + CPVC+
Sbjct: 22 CPICLELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRV 67
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 33.1 bits (74), Expect = 0.12, Method: Composition-based stats.
Identities = 18/52 (34%), Positives = 24/52 (46%), Gaps = 7/52 (13%)
Query: 28 GFECNICFELAQD----PIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVV 75
G EC +C +D + CGH F C+ WL HS CP+C+ V
Sbjct: 5 GVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHS---TCPLCRLTV 53
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 24/59 (40%), Gaps = 4/59 (6%)
Query: 29 FECNICFELAQD----PIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPL 83
EC IC E + P + CGH C CL + L + CP C + + L L
Sbjct: 16 LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLTQL 74
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 46 CGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPLYGRGKTQTDPRSKSYPGI 101
C H FC C+ R+L S+ CP+C V + + + KT D K PG+
Sbjct: 34 CLHSFCKTCIVRYL---ETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGL 86
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 46 CGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPLYGRGKTQTDPRSKSYPGI 101
C H FC C+ R+L S+ CP+C V + + + KT D K PG+
Sbjct: 34 CLHSFCKTCIVRYL---ETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGL 86
>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 146
Length = 71
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 7/63 (11%)
Query: 20 GNSANDAGGFECNICFELAQDPIVTLCGHLFCWPCLY--RWLHHHSHSQECPVCKAVVQE 77
GN+A EC IC + P+ C H+FC+ C+ WL + C +C+ + E
Sbjct: 7 GNTAPSLTVPECAICLQTCVHPVSLPCKHVFCYLCVKGASWL-----GKRCALCRQEIPE 61
Query: 78 EKL 80
+ L
Sbjct: 62 DFL 64
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 32.3 bits (72), Expect = 0.19, Method: Composition-based stats.
Identities = 21/56 (37%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 31 CNICFELAQDPI-VTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPLYG 85
C+IC D +T C H FC C+ R H +S CP C VV + + PL G
Sbjct: 18 CSICKGYLIDATTITECLHTFCKSCIVR---HFYYSNRCPKCNIVVHQTQ--PLSG 68
>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 = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 3/57 (5%)
Query: 26 AGGFECNICFELAQDPIVT-LCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLV 81
A F C IC E +D + C L C+ C+ RWL +CP C+A +Q +LV
Sbjct: 20 AEVFRCFICXEKLRDARLCPHCSKLCCFSCIRRWL--TEQRAQCPHCRAPLQLRELV 74
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 32.0 bits (71), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 4/56 (7%)
Query: 20 GNSANDAGGFECNICFELAQDPIVTLCGHLFCWPCL----YRWLHHHSHSQECPVC 71
G+S N C IC EL +P+ CGH C C+ + CPVC
Sbjct: 4 GSSGNVQEEVTCPICLELLTEPLSLDCGHSLCRACITVSNKEAVTSMGGKSSCPVC 59
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 3/56 (5%)
Query: 46 CGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPLYGRGKTQTDPRSKSYPGI 101
C H FC C+ R+L S+ CP+C V + + + KT D K PG+
Sbjct: 30 CLHSFCKTCIVRYL---ETSKYCPICDVQVHKTRPLLNIRSDKTLQDIVYKLVPGL 82
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 24/56 (42%), Gaps = 6/56 (10%)
Query: 20 GNSANDAGGFECNICFE---LAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCK 72
G + G EC +C E L + C HLF C+ WL H CPVC+
Sbjct: 7 GTEEHVGSGLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQH---DSCPVCR 59
>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 = 0.31, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 7/46 (15%)
Query: 31 CNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C +C + A + CGHL C C Q CP+C+A V+
Sbjct: 16 CKVCLDRAVSIVFVPCGHLVCAECA-------PGLQLCPICRAPVR 54
>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 = 31.6 bits (70), Expect = 0.41, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 2/52 (3%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKL 80
++C C + P T CGH FC C+ L S S +C C+ + ++K+
Sbjct: 16 YKCEKCHLVLCSPKQTECGHRFCESCMAALL--SSSSPKCTACQESIVKDKV 65
>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 = 31.2 bits (69), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 19/45 (42%), Gaps = 2/45 (4%)
Query: 28 GFECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCK 72
F C C EL P+ T C H C CL R S CP C+
Sbjct: 78 SFMCVCCQELVYQPVTTECFHNVCKDCLQRSFKAQVFS--CPACR 120
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%), Gaps = 2/46 (4%)
Query: 30 ECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVV 75
+C IC E+ +P+ C H C PC + S CP C+ V
Sbjct: 17 QCGICMEILVEPVTLPCNHTLCKPCFQSTVEKASLC--CPFCRRRV 60
>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 = 0.69, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 25/48 (52%), Gaps = 4/48 (8%)
Query: 30 ECNICFELAQDPIVTL-CGHLFCWPCLYRWLHHHSHSQECPVCKAVVQ 76
C IC E + + L C H FC+ C+ RW+ + CP+CK V+
Sbjct: 7 RCPICLEDPSNYSMALPCLHAFCYVCITRWIRQNP---TCPLCKVPVE 51
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 30.0 bits (66), Expect = 1.1, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 27/52 (51%), Gaps = 6/52 (11%)
Query: 30 ECNICF---ELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEE 78
+C IC E +D C HLF C+ +WL +++CP+C+ ++ +
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWL---ITNKKCPICRVDIEAQ 64
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.0 bits (66), Expect = 1.2, Method: Composition-based stats.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 10/60 (16%)
Query: 26 AGGFECNICF----ELAQDP---IVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEE 78
+G C IC E+ Q+ + T CGH+FC CL L ++ CP C+ + +
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSL---KNANTCPTCRKKINHK 69
>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 = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 25/56 (44%), Gaps = 2/56 (3%)
Query: 29 FECNICFELAQDPIVTLCGHLFCWPCLYRWLHHHSHSQECPVCKAVVQEEKLVPLY 84
F C I EL +DP++ G + + +WL + + CP + + L P Y
Sbjct: 9 FRCPISLELMKDPVIVSTGQTYERSSIQKWL--DAGHKTCPKSQETLLHAGLTPNY 62
>pdb|4E1O|A Chain A, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|B Chain B, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|C Chain C, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|D Chain D, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|E Chain E, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
pdb|4E1O|F Chain F, Human Histidine Decarboxylase Complex With Histidine
Methyl Ester (Hme)
Length = 481
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 21/50 (42%)
Query: 59 LHHHSHSQECPVCKAVVQEEKLVPLYGRGKTQTDPRSKSYPGIDIPSRPA 108
LHHH SQ V ++ V E L+ L K + S P D S A
Sbjct: 138 LHHHPSSQGGGVLQSTVSESTLIALLAARKNKILEMKTSEPDADESSLNA 187
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
0.320 0.138 0.466
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,894,309
Number of Sequences: 62578
Number of extensions: 294671
Number of successful extensions: 764
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 38
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 714
Number of HSP's gapped (non-prelim): 59
length of query: 222
length of database: 14,973,337
effective HSP length: 95
effective length of query: 127
effective length of database: 9,028,427
effective search space: 1146610229
effective search space used: 1146610229
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)