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= 029203
(197 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 19/39 (48%), Positives = 29/39 (74%), Gaps = 1/39 (2%)
Query: 131 LCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
+C+++ ++LR++P C H FH CVD WLK N +CP+CR
Sbjct: 30 MCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 45.8 bits (107), Expect = 2e-05, Method: Composition-based stats.
Identities = 19/39 (48%), Positives = 24/39 (61%)
Query: 131 LCEYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
L E +D E R +P C H FH CVD WL + +CP+CR
Sbjct: 12 LAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>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 = 40.4 bits (93), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 18/37 (48%), Positives = 24/37 (64%), Gaps = 1/37 (2%)
Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
EY ++ +P C HYFH CV WL+ +G+CPVCR
Sbjct: 49 EYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/32 (53%), Positives = 20/32 (62%), Gaps = 1/32 (3%)
Query: 138 EMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
E +R +P C H FH CVD WL N CP+CR
Sbjct: 28 EDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/37 (45%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
+Y E +R +P C H FH C+ WL+ + SCPVCR
Sbjct: 24 DYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 37.0 bits (84), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 22/37 (59%)
Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVCR 169
E K + + + EC H FH CC+ W+K N CP+C+
Sbjct: 35 ENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 30.4 bits (67), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPVCR 169
C H F C++ W+K CP+CR
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 30.4 bits (67), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPVCR 169
C H F C++ W+K CP+CR
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICR 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 = 30.0 bits (66), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPVCR 169
C H F C++ W+K CP+CR
Sbjct: 82 CAHSFCSYCINEWMKRKIECPICR 105
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 29.6 bits (65), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%), Gaps = 1/36 (2%)
Query: 133 EYKDLEMLRMMPECRHYFHLCCVDAWLKLNGSCPVC 168
++K + L + P C+H FH C+ WL++ CP+C
Sbjct: 24 DFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 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 = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 142 MMPECRHYFHLCCVDAWLKLNGSCPVCR 169
M C H F C+ W++ N +CP+C+
Sbjct: 20 MALPCLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK 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 = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 28.1 bits (61), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 28.1 bits (61), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPV 167
C H FH C+ WLK CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 6.5, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 146 CRHYFHLCCVDAWLKLNGSCPVCR 169
C H F C+D W + +CP+CR
Sbjct: 32 CAHSFCQKCIDKWSDRHRNCPICR 55
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
0.324 0.140 0.445
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,107,387
Number of Sequences: 62578
Number of extensions: 108174
Number of successful extensions: 207
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 184
Number of HSP's gapped (non-prelim): 24
length of query: 197
length of database: 14,973,337
effective HSP length: 94
effective length of query: 103
effective length of database: 9,091,005
effective search space: 936373515
effective search space used: 936373515
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 49 (23.5 bits)