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= 031354
(161 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 = 60.1 bits (144), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 24/48 (50%), Positives = 34/48 (70%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLRV 151
C +CL EDG++ + LP+C H +H ECVD WL + S+CPLCR ++ V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 49.7 bits (117), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 24/54 (44%), Positives = 34/54 (62%), Gaps = 3/54 (5%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLRVDSALPS 157
C ICL + E+G+ V+ LP C H +H CVD WL CP+CR + +++ LPS
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR--VDIEAQLPS 67
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%), Gaps = 1/43 (2%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCR 146
C +C+ FE +++LP C H +H +CVD WL A +CP+CR
Sbjct: 26 CVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 39.7 bits (91), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSL 149
C +C + G+ V+ LP C H +H C+ WL SCP+CR SL
Sbjct: 18 CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 26/42 (61%), Gaps = 1/42 (2%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLC 145
C +CL F+ D++ I P C+H +H +C+ WL R CPLC
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCR 146
C IC + GD LP C H +H CV WL +CP+CR
Sbjct: 43 CPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCR 146
CCIC+ DG ILP C H + +C+D W +CP+CR
Sbjct: 18 CCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 31.2 bits (69), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 23/42 (54%), Gaps = 3/42 (7%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLC 145
C IC FE + I+P+C H Y C+ +LS ++ CP C
Sbjct: 25 CGIC---FEYFNIAMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 30.4 bits (67), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLR 150
C IC F + + C H + C++ W+ + CP+CR ++
Sbjct: 56 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>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 = 0.54, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLR 150
C IC F + + C H + C++ W+ + CP+CR ++
Sbjct: 67 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 30.0 bits (66), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLR 150
C IC F + + C H + C++ W+ + CP+CR ++
Sbjct: 56 CIICSEYFIEA----VTLNCAHSFCSYCINEWMKRKIECPICRKDIK 98
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
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 = 28.5 bits (62), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 1.9, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 2.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
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 = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 123 CRHCYHCECVDAWLSARSSCPL 144
C H +H C+ WL R CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 27.3 bits (59), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 19/37 (51%)
Query: 115 DKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLRV 151
D V + +C H +H C+ W+ + CPLC+ V
Sbjct: 40 DCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76
>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 = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLCRNSLRVDSALPSITT 160
C ICL ED + C H + C+ W+ +CPLC+ + V+S + +I +
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCK--VPVESVVHTIES 59
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 26.2 bits (56), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 3/59 (5%)
Query: 87 LHRXXXXXXXXXXXXXXCCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLC 145
+HR C +C G F D + +C H + C+ +L CP+C
Sbjct: 1 MHRTTRIKITELNPHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 22/59 (37%), Gaps = 3/59 (5%)
Query: 87 LHRXXXXXXXXXXXXXXCCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSSCPLC 145
+HR C +C G F D + +C H + C+ +L CP+C
Sbjct: 1 MHRTTRIKITELNPHLMCVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 26.2 bits (56), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSS-----CPLCRNS 148
C +C G +D DK + +C +H C+D LS+ S CP CRN
Sbjct: 193 CHLC-GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 241
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 26.2 bits (56), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 104 CCICLGVFEDGDKVKILPKCRHCYHCECVDAWLSARSS-----CPLCRNS 148
C +C G +D DK + +C +H C+D LS+ S CP CRN
Sbjct: 177 CHLC-GGRQDPDKQLMCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRND 225
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
0.327 0.137 0.475
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,665,958
Number of Sequences: 62578
Number of extensions: 93840
Number of successful extensions: 392
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 22
Number of HSP's successfully gapped in prelim test: 18
Number of HSP's that attempted gapping in prelim test: 366
Number of HSP's gapped (non-prelim): 41
length of query: 161
length of database: 14,973,337
effective HSP length: 91
effective length of query: 70
effective length of database: 9,278,739
effective search space: 649511730
effective search space used: 649511730
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 47 (22.7 bits)