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= 016591
(386 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 = 54.3 bits (129), Expect = 1e-07, Method: Composition-based stats.
Identities = 21/58 (36%), Positives = 33/58 (56%), Gaps = 4/58 (6%)
Query: 29 DACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI----SLKDPTS 82
+ C++CLEDF D + CKH FH +C+++W + CP+C P+ L P+S
Sbjct: 16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSGPSS 73
>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 = 45.1 bits (105), Expect = 8e-05, Method: Composition-based stats.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 24 QDACDDACSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
Q+ C C IC ++ + D +T C H FH C+ W Q+S CP+C
Sbjct: 39 QEMC---CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 40.0 bits (92), Expect = 0.002, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 26 ACDDA--CSICLEDFSESDPST-LTSCKHEFHLQCILEWCQRSSQCPMC 71
A DD C++CL + + + + L C H FH +C+ W S CP+C
Sbjct: 1 AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLC 49
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
C +C+ DF + C HEFH +C+ +W + + CP+C
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPIC 66
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 38.9 bits (89), Expect = 0.004, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 25/51 (49%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPT 81
C+ICL E + C H FH C+ +W + +CP+C I + P+
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDIEAQLPS 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 = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 22/41 (53%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
C +C ED++ + C H FH CI+ W ++ CP+C
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVC 58
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
C IC E F E+ +C H F CI EW +R +CP+C + I K
Sbjct: 56 CIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
C IC E F E+ +C H F CI EW +R +CP+C + I K
Sbjct: 56 CIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>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 = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 25/48 (52%), Gaps = 3/48 (6%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
C IC E F E+ +C H F CI EW +R +CP+C + I K
Sbjct: 67 CIICSEYFIEA---VTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 111
>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 = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPI 75
C ICLED S+ S C H F CI W +++ CP+C P+
Sbjct: 8 CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 36.2 bits (82), Expect = 0.035, Method: Composition-based stats.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 1/46 (2%)
Query: 29 DACSICLEDFSESDPSTL-TSCKHEFHLQCILEWCQRSSQCPMCWQ 73
DAC C + + D + C H FH C+ W +++++CP+C Q
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>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 = 35.0 bits (79), Expect = 0.080, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 32/68 (47%), Gaps = 2/68 (2%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVE 90
C IC E F+ + + C H + CI ++ +QCP C ++ D + +L+ +
Sbjct: 25 CGICFEYFNIA--MIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLKNNRILDELV 82
Query: 91 RERSFRLN 98
+ +F N
Sbjct: 83 KSLNFARN 90
>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 = 33.9 bits (76), Expect = 0.17, Method: Composition-based stats.
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 1/48 (2%)
Query: 30 ACSICLEDFSESDP-STLTSCKHEFHLQCILEWCQRSSQCPMCWQPIS 76
C ICLED S + + C H H C E + +CP+C P S
Sbjct: 7 GCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPSS 54
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 33.1 bits (74), Expect = 0.26, Method: Composition-based stats.
Identities = 14/41 (34%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
C +C F D +T+ C H F CI+ + + S CP+C
Sbjct: 14 CVLCGGYFI--DATTIIECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 33.1 bits (74), Expect = 0.27, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 30 ACSICLEDFSESDPS----TLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
+C IC++ +SE + T C H F QC+ + + ++ CP C + I+ K
Sbjct: 5 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 57
>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 = 33.1 bits (74), Expect = 0.28, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 32/61 (52%), Gaps = 4/61 (6%)
Query: 22 GIQDACDDACSICLEDFSESDPS----TLTSCKHEFHLQCILEWCQRSSQCPMCWQPISL 77
G++ + +C IC++ +SE + T C H F QC+ + + ++ CP C + I+
Sbjct: 4 GLRPSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINH 63
Query: 78 K 78
K
Sbjct: 64 K 64
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 32.7 bits (73), Expect = 0.32, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 42 DPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
D +T+ C H F CI+ + + S CP+C
Sbjct: 27 DATTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 32.7 bits (73), Expect = 0.34, Method: Composition-based stats.
Identities = 11/30 (36%), Positives = 17/30 (56%)
Query: 42 DPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
D +T+ C H F CI+ + + S CP+C
Sbjct: 27 DATTIIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.0 bits (71), Expect = 0.57, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 31 CSICLEDFSESDP-STLTSCKHEFHLQCILEWCQRSSQCPMC 71
C ICLED S + + C H H C E + +CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 32.0 bits (71), Expect = 0.62, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
CSIC D +T+T C H F CI+ S++CP C
Sbjct: 18 CSICKGYLI--DATTITECLHTFCKSCIVRHFYYSNRCPKC 56
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.6 bits (70), Expect = 0.75, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 4/53 (7%)
Query: 30 ACSICLEDFSESDPS----TLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLK 78
+C IC++ +SE + T C H F QC+ + + ++ CP C + I+ K
Sbjct: 17 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK 69
>pdb|2CSY|A Chain A, Solution Structure Of The Ring Domain Of The Zinc Finger
Protein 183-Like 1
Length = 81
Score = 31.6 bits (70), Expect = 0.83, Method: Composition-based stats.
Identities = 17/61 (27%), Positives = 30/61 (49%), Gaps = 3/61 (4%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMCWQPISLKDPTSQELLEAVE 90
C IC + F +T C+H F C LE + + +C +C QP ++EL+ ++
Sbjct: 18 CFICRQAFQNP---VVTKCRHYFCESCALEHFRATPRCYICDQPTGGIFNPAKELMAKLQ 74
Query: 91 R 91
+
Sbjct: 75 K 75
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI W + CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 1.5, Method: Composition-based stats.
Identities = 22/66 (33%), Positives = 29/66 (43%), Gaps = 20/66 (30%)
Query: 26 ACDDACSICLE---------DFSESDP------STLTSCKHEFHLQCILE-WCQ----RS 65
A ++ C IC+E D ++S LT C H FHL C+L +C S
Sbjct: 23 APEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRLTKCSHAFHLLCLLAMYCNGNKDGS 82
Query: 66 SQCPMC 71
QCP C
Sbjct: 83 LQCPSC 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 = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI W + CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI 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 = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI 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 = 30.0 bits (66), Expect = 2.1, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI W + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 30.0 bits (66), Expect = 2.2, Method: Composition-based stats.
Identities = 26/76 (34%), Positives = 38/76 (50%), Gaps = 11/76 (14%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRS---SQCPMCWQPI---SLKDPT--S 82
C ICLE E T C H F C+L+ + SQCP+C I SL++ T S
Sbjct: 24 CPICLELIKEP---VSTKCDHIFCKFCMLKLLNQKKGPSQCPLCKNDITKRSLQESTRFS 80
Query: 83 QELLEAVERERSFRLN 98
Q + E ++ +F+L+
Sbjct: 81 QLVEELLKIICAFQLD 96
>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 = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 9/22 (40%), Positives = 11/22 (50%)
Query: 49 CKHEFHLQCILEWCQRSSQCPM 70
C H FH CI W + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 21/41 (51%), Gaps = 4/41 (9%)
Query: 31 CSICLEDFSESDPSTLTSCKHEFHLQCILEWCQRSSQCPMC 71
C IC++ ++ + C H F +CI +W R CP+C
Sbjct: 18 CCICMDGRAD----LILPCAHSFCQKCIDKWSDRHRNCPIC 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
0.311 0.124 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,110,462
Number of Sequences: 62578
Number of extensions: 294447
Number of successful extensions: 477
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 29
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 447
Number of HSP's gapped (non-prelim): 36
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
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: 52 (24.6 bits)