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= 005382
(699 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 43.9 bits (102), Expect = 3e-04, Method: Composition-based stats.
Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 659 DGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPICKTTAL 695
DGE+ L CGH FH C+ WL + CP+C+ T +
Sbjct: 17 DGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 16/33 (48%), Positives = 20/33 (60%)
Query: 659 DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 691
+GED L C H FH C+ QWL+ CPIC+
Sbjct: 26 EGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 38.1 bits (87), Expect = 0.019, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 661 EDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 695
++ GI C H FH C+ +WL + +CP+C L
Sbjct: 29 DELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 37.7 bits (86), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 665 ILHCGHDFHTSCIKQWLMHKNLCPICKT 692
+L C H+FH C+ +WL CPIC+
Sbjct: 41 VLPCNHEFHAKCVDKWLKANRTCPICRA 68
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 37.4 bits (85), Expect = 0.031, Method: Composition-based stats.
Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 2/36 (5%)
Query: 658 NDGEDTGIL--HCGHDFHTSCIKQWLMHKNLCPICK 691
N ED ++ C H FH C+ W+ N CP+C+
Sbjct: 36 NKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.032, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 666 LHCGHDFHTSCIKQWLMHKNLCPICK 691
L+C H F + CI +W+ K CPIC+
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.4 bits (85), Expect = 0.032, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 666 LHCGHDFHTSCIKQWLMHKNLCPICK 691
L+C H F + CI +W+ K CPIC+
Sbjct: 69 LNCAHSFCSYCINEWMKRKIECPICR 94
>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 = 37.4 bits (85), Expect = 0.032, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 17/26 (65%)
Query: 666 LHCGHDFHTSCIKQWLMHKNLCPICK 691
L+C H F + CI +W+ K CPIC+
Sbjct: 80 LNCAHSFCSYCINEWMKRKIECPICR 105
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 19/35 (54%)
Query: 657 YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 691
Y GE L C H FH SCI WL + CP+C+
Sbjct: 25 YALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>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 = 34.7 bits (78), Expect = 0.20, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 17/35 (48%)
Query: 657 YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 691
Y G+ L C H FH C+ WL CP+C+
Sbjct: 50 YVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|1U6G|B Chain B, Crystal Structure Of The Cand1-Cul1-Roc1 Complex
pdb|2HYE|D Chain D, Crystal Structure Of The Ddb1-cul4a-rbx1-sv5v Complex
Length = 108
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|1LDJ|B Chain B, Structure Of The Cul1-rbx1-skp1-f Boxskp2 Scf Ubiquitin
Ligase Complex
pdb|1LDK|C Chain C, Structure Of The Cul1-Rbx1-Skp1-F Boxskp2 Scf Ubiquitin
Ligase Complex
Length = 90
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|4A0C|D Chain D, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0C|F Chain F, Structure Of The Cand1-Cul4b-Rbx1 Complex
pdb|4A0L|F Chain F, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
pdb|4A0L|I Chain I, Structure Of Ddb1-Ddb2-Cul4b-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 98
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|3DQV|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
pdb|3DQV|Y Chain Y, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation
Length = 106
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|3DPL|R Chain R, Structural Insights Into Nedd8 Activation Of Cullin-Ring
Ligases: Conformational Control Of Conjugation.
pdb|3RTR|B Chain B, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|D Chain D, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|F Chain F, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|3RTR|H Chain H, A Ring E3-Substrate Complex Poised For Ubiquitin-Like
Protein Transfer: Structural Insights Into Cullin-Ring
Ligases
pdb|4F52|B Chain B, Structure Of A Glomulin-Rbx1-Cul1 Complex
pdb|4F52|D Chain D, Structure Of A Glomulin-Rbx1-Cul1 Complex
Length = 106
Score = 33.9 bits (76), Expect = 0.32, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPI 689
C H FH CI +WL + +CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 32.3 bits (72), Expect = 0.88, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 665 ILHCGHDFHTSCIKQWLMHKNLCPICKTT 693
I C H++ + CI+++L +K CP C T
Sbjct: 38 IPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 663 TGILHCGHDFHTSCIKQWLMHKNLCPIC 690
T I+ C H F +CI ++L CPIC
Sbjct: 29 TTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 663 TGILHCGHDFHTSCIKQWLMHKNLCPIC 690
T I+ C H F +CI ++L CPIC
Sbjct: 29 TTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 32.0 bits (71), Expect = 1.2, Method: Composition-based stats.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 663 TGILHCGHDFHTSCIKQWLMHKNLCPIC 690
T I+ C H F +CI ++L CPIC
Sbjct: 25 TTIIECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 31.6 bits (70), Expect = 1.4, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)
Query: 665 ILHCGHDFHTSCIKQW---LMHKNLCPIC 690
I+ CGH+F +CI +W L CP+C
Sbjct: 30 IIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 1.5, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPICK 691
CGH F + C++ L + N CP C+
Sbjct: 28 CGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 31.2 bits (69), Expect = 1.9, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPICK 691
CGH F + C++ L + N CP C+
Sbjct: 32 CGHVFCSQCLRDSLKNANTCPTCR 55
Score = 31.2 bits (69), Expect = 1.9, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPICK 691
CGH F + C++ L + N CP C+
Sbjct: 97 CGHVFCSQCLRDSLKNANTCPTCR 120
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 16/33 (48%)
Query: 659 DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 691
DG IL C H F CI +W CPIC+
Sbjct: 23 DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.8 bits (68), Expect = 2.5, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPICK 691
CGH F + C++ L + N CP C+
Sbjct: 40 CGHVFCSQCLRDSLKNANTCPTCR 63
>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 = 30.8 bits (68), Expect = 2.6, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 668 CGHDFHTSCIKQWLMHKNLCPICK 691
CGH F + C++ L + N CP C+
Sbjct: 35 CGHVFCSQCLRDSLKNANTCPTCR 58
>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 = 30.4 bits (67), Expect = 3.3, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 666 LHCGHDFHTSCIKQWLMHKNLCPICK 691
L C H F CI +W+ CP+CK
Sbjct: 22 LPCLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
Complex
Length = 391
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)
Query: 621 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 680
TGL E T ++ +K + L ND +D I CGH TSC+ W
Sbjct: 306 TGLCEPTPQDHIKVTQEQFELXCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 364
Query: 681 LMHKNL-CPICKT 692
+ CP C+
Sbjct: 365 QESEGQGCPFCRC 377
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 30.0 bits (66), Expect = 5.0, Method: Composition-based stats.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 665 ILHCGHDFHTSCIKQWLMHKNLCPIC 690
+L CGH H +C ++ L CP+C
Sbjct: 24 VLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
Length = 391
Score = 29.6 bits (65), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)
Query: 621 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 680
TGL E T ++ +K + L ND +D I CGH TSC+ W
Sbjct: 306 TGLCEPTPQDHIKVTQEQYELXCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 364
Query: 681 LMHKNL-CPICKT 692
+ CP C+
Sbjct: 365 QESEGQGCPFCRC 377
>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 = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)
Query: 621 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 680
TGL E T ++ +K + L ND +D I CGH TSC+ W
Sbjct: 304 TGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 362
Query: 681 LMHKNL-CPICKT 692
+ CP C+
Sbjct: 363 QESEGQGCPFCRC 375
>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
Ubiquitin-Protein Ligases
Length = 388
Score = 29.3 bits (64), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)
Query: 621 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 680
TGL E T ++ +K + L ND +D I CGH TSC+ W
Sbjct: 304 TGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 362
Query: 681 LMHKNL-CPICKT 692
+ CP C+
Sbjct: 363 QESEGQGCPFCRC 375
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
0.314 0.130 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,521,019
Number of Sequences: 62578
Number of extensions: 730331
Number of successful extensions: 1023
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 992
Number of HSP's gapped (non-prelim): 36
length of query: 699
length of database: 14,973,337
effective HSP length: 106
effective length of query: 593
effective length of database: 8,340,069
effective search space: 4945660917
effective search space used: 4945660917
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)