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= 013396
(444 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 37.7 bits (86), Expect = 0.013, Method: Composition-based stats.
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 27/74 (36%)
Query: 28 DACSICLEPFSDSDPSTVTSFDFHVRFFRVVILRDLGNFSLLLQLTSCRHEFHLQCVLEW 87
+ C++CLE F D L + C+H FH +C+++W
Sbjct: 16 ELCAVCLEDFKPRDE---------------------------LGICPCKHAFHRKCLIKW 48
Query: 88 CQRSSQCPMCWQPI 101
+ CP+C P+
Sbjct: 49 LEVRKVCPLCNMPV 62
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 20/29 (68%)
Query: 69 LLQLTSCRHEFHLQCVLEWCQRSSQCPMC 97
LL++ C HEFH +CV +W + + CP+C
Sbjct: 38 LLRVLPCNHEFHAKCVDKWLKANRTCPIC 66
>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 = 0.097, Method: Composition-based stats.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPMC 97
C H FH CV W Q+S CP+C
Sbjct: 61 CHHYFHKPCVSIWLQKSGTCPVC 83
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 34.7 bits (78), Expect = 0.100, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 74 SCRHEFHLQCVLEWCQRSSQCPMCWQPISLKDPTRF---CVNFAARNYLRRSNKRGALVL 130
+C H F C+ EW +R +CP+C + I K + C+N N L K +VL
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERRIVL 128
Query: 131 IR 132
IR
Sbjct: 129 IR 130
>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 = 0.12, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 30/62 (48%), Gaps = 4/62 (6%)
Query: 74 SCRHEFHLQCVLEWCQRSSQCPMCWQPISLKDPTRF---CVNFAARNYLRRSNKRGALVL 130
+C H F C+ EW +R +CP+C + I K + C+N N L K +VL
Sbjct: 81 NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNCINKMVNN-LSSEVKERRIVL 139
Query: 131 IR 132
IR
Sbjct: 140 IR 141
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 33.9 bits (76), Expect = 0.20, Method: Composition-based stats.
Identities = 20/61 (32%), Positives = 29/61 (47%), Gaps = 2/61 (3%)
Query: 74 SCRHEFHLQCVLEWCQRSSQCPMCWQPISLKDPTRFCVNFAAR--NYLRRSNKRGALVLI 131
+C H F C+ EW +R +CP+C + I K + N + N L K +VLI
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDIKSKTYSLVLDNXINKMVNNLSSEVKERRIVLI 129
Query: 132 R 132
R
Sbjct: 130 R 130
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 33.1 bits (74), Expect = 0.35, Method: Composition-based stats.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 72 LTSCRHEFHLQCVLEWCQRSSQCPMC 97
L C H FH +CV W S CP+C
Sbjct: 24 LPRCGHGFHAECVDMWLGSHSTCPLC 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 = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%), Gaps = 3/44 (6%)
Query: 58 VILRDLGNFSLLLQLTSCRHEFHLQCVLEWCQRSSQCPMCWQPI 101
+ L D N+S+ L C H F C+ W +++ CP+C P+
Sbjct: 10 ICLEDPSNYSMAL---PCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 32.3 bits (72), Expect = 0.55, Method: Composition-based stats.
Identities = 10/25 (40%), Positives = 17/25 (68%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPMCWQ 99
C H FH C+ W +++++CP+C Q
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 12/33 (36%), Positives = 18/33 (54%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPMCWQPISLKDPT 107
C H FH CV +W + +CP+C I + P+
Sbjct: 35 CMHLFHQVCVDQWLITNKKCPICRVDIEAQLPS 67
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 5/32 (15%)
Query: 71 QLTSCRHEFHLQCVLE-WCQ----RSSQCPMC 97
+LT C H FHL C+L +C S QCP C
Sbjct: 57 RLTKCSHAFHLLCLLAMYCNGNKDGSLQCPSC 88
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 9/23 (39%), Positives = 14/23 (60%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPMC 97
C H FH C++ W ++ CP+C
Sbjct: 36 CNHLFHDSCIVPWLEQHDSCPVC 58
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 29.6 bits (65), Expect = 3.3, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + 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 = 29.6 bits (65), Expect = 3.7, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 29.6 bits (65), Expect = 3.8, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 29.6 bits (65), Expect = 3.9, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 29.3 bits (64), Expect = 4.1, Method: Composition-based stats.
Identities = 8/22 (36%), Positives = 11/22 (50%)
Query: 75 CRHEFHLQCVLEWCQRSSQCPM 96
C H FH C+ W + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 28.9 bits (63), Expect = 6.8, Method: Composition-based stats.
Identities = 12/45 (26%), Positives = 20/45 (44%)
Query: 58 VILRDLGNFSLLLQLTSCRHEFHLQCVLEWCQRSSQCPMCWQPIS 102
+ L D+ ++ + C H H C E + +CP+C P S
Sbjct: 10 ICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54
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 0.131 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,357,477
Number of Sequences: 62578
Number of extensions: 275626
Number of successful extensions: 511
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 25
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 484
Number of HSP's gapped (non-prelim): 28
length of query: 444
length of database: 14,973,337
effective HSP length: 102
effective length of query: 342
effective length of database: 8,590,381
effective search space: 2937910302
effective search space used: 2937910302
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: 53 (25.0 bits)