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= 040167
(227 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 = 44.3 bits (103), Expect = 5e-05, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 175 DVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
++C CLE++ P + + C H FH C+ +W+E + CP+C
Sbjct: 16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLC 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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 26/51 (50%)
Query: 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMVFDETT 227
CP C E+Y C+H FH CI W+E+ ++CPVC K + T
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSLTGQNTA 68
>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 = 7e-04, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 23/45 (51%)
Query: 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
E CP C EY + C H+FH C+ W+++S CPVC
Sbjct: 39 QEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVC 83
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 165 AYIYSPSE---DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
+Y ++P+ ++ +C C+ ++ V C+H FH C+ +W++ + CP+C
Sbjct: 11 SYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPIC 66
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219
E+E C C E + + C+H F CI EWM+R CP+C K
Sbjct: 51 ENELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRK 95
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219
E+E C C E + + C+H F CI EWM+R CP+C K
Sbjct: 51 ENELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRK 95
>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 = 0.016, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 177 CPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
CP CLE+ P N + C H F CI W+ ++ CP+C
Sbjct: 8 CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPTCPLC 46
>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 = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 24/48 (50%), Gaps = 3/48 (6%)
Query: 172 EDEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVCGK 219
E+E C C E + + C+H F CI EWM+R CP+C K
Sbjct: 62 ENELQCIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRK 106
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 24/45 (53%), Gaps = 4/45 (8%)
Query: 173 DEDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
DE+ C C++ ++ C+H F CI +W +R NCP+C
Sbjct: 14 DEEECCICMDGRA----DLILPCAHSFCQKCIDKWSDRHRNCPIC 54
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 177 CPTCLEEYT-PENPKIVTKCSHHFHLGCIYEWMERSENCPVCGKVMV 222
C CL E E + + +C H FH C+ W+ CP+C +V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 175 DVCPTCLEEYTPENPKIVT-KCSHHFHLGCIYEWMERSENCPVCGK 219
D C C E E+ +V +C+H FH C+ W++++ CP+C +
Sbjct: 27 DACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 174 EDVCPTCLEEYTPENPKIVTKCSHHFHLGCIYEW---MERSENCPVC 217
E C CLE Y E ++ +C H+F CI W +ER CPVC
Sbjct: 15 EASCSVCLE-YLKE--PVIIECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 26/56 (46%), Gaps = 6/56 (10%)
Query: 177 CPTCLEEYTPEN--PKIVTKCSHHFHLGCIYEWMERSEN---CPVCGKVMVFDETT 227
CP C+E +T E PK++ C H C+ + + S N CP C K+ T
Sbjct: 18 CPICMESFTEEQLRPKLL-HCGHTICRQCLEKLLASSINGVRCPFCSKITRITSLT 72
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 177 CPTCLEEYTP--ENPKIV--TKCSHHFHLGCIYEWMERSENCPVCGK 219
CP C++ Y+ +N +++ T+C H F C+ + ++ + CP C K
Sbjct: 18 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 64
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 177 CPTCLEEYTP--ENPKIV--TKCSHHFHLGCIYEWMERSENCPVCGK 219
CP C++ Y+ +N +++ T+C H F C+ + ++ + CP C K
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 177 CPTCLEEYT--PENPKIV--TKCSHHFHLGCIYEWMERSENCPVCGK 219
CP C++ Y+ +N +++ T+C H F C+ + ++ + CP C K
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 52
>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 = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 21/48 (43%), Gaps = 1/48 (2%)
Query: 171 SEDEDVCPTCLEE-YTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
S CP CLE+ +T V C H H C E ++ CP+C
Sbjct: 2 SSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 177 CPTCLEEYTP--ENPKIV--TKCSHHFHLGCIYEWMERSENCPVCGK 219
CP C++ Y+ +N +++ T+C H F C+ + ++ + CP C K
Sbjct: 10 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 177 CPTCLEEYTP--ENPKIV--TKCSHHFHLGCIYEWMERSENCPVCGK 219
CP C++ Y+ +N +++ T+C H F C+ + ++ + CP C K
Sbjct: 75 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 29.6 bits (65), Expect = 1.6, Method: Composition-based stats.
Identities = 9/23 (39%), Positives = 15/23 (65%)
Query: 195 CSHHFHLGCIYEWMERSENCPVC 217
C H FH C+ +W+ ++ CP+C
Sbjct: 35 CMHLFHQVCVDQWLITNKKCPIC 57
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 192 VTKCSHHFHLGCIYEWMERSENCPVC 217
+ +C H F CI ++E S+ CP+C
Sbjct: 31 IIECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 192 VTKCSHHFHLGCIYEWMERSENCPVC 217
+ +C H F CI ++E S+ CP+C
Sbjct: 31 IIECLHSFCKTCIVRYLETSKYCPIC 56
>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 = 3.1, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%), Gaps = 1/42 (2%)
Query: 177 CPTCLEE-YTPENPKIVTKCSHHFHLGCIYEWMERSENCPVC 217
CP CLE+ +T V C H H C E ++ CP+C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 16/26 (61%)
Query: 192 VTKCSHHFHLGCIYEWMERSENCPVC 217
+ +C H F CI ++E S+ CP+C
Sbjct: 27 IIECLHSFCKTCIVRYLETSKYCPIC 52
>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 = 3.4, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + 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 = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + 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 = 3.7, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI 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 = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|1H3J|A Chain A, Structure Of Recombinant Coprinus Cinereus Peroxidase
Determined To 2.0 A
pdb|1H3J|B Chain B, Structure Of Recombinant Coprinus Cinereus Peroxidase
Determined To 2.0 A
Length = 342
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 49/122 (40%), Gaps = 19/122 (15%)
Query: 39 NVYTSLF-RRGDVHSVPSSIQGAASMTSTASLDNSLSDMYRSPPRPLPYDADPRYFRLQH 97
N T++ R GD P + + S AS + S ++RS P D+ P+ F Q
Sbjct: 156 NTVTAILDRMGDAGFSPDEVVDLLAAXSLASQEGLNSAIFRS-----PLDSTPQVFDTQF 210
Query: 98 EGLVSRREKGSSQ------FHEESEPLRSDNDVESESFSAGD-----KWNDSSCEDGSKE 146
+ KG++Q F EE P + + S++ A D +W + +
Sbjct: 211 --YIETLLKGTTQPGPSLGFAEELSPFPGEFRMRSDALLARDSRTACRWQSMTSSNEVMG 268
Query: 147 QR 148
QR
Sbjct: 269 QR 270
>pdb|1KKC|A Chain A, Crystal Structure Of Aspergillus Fumigatus Mnsod
pdb|1KKC|B Chain B, Crystal Structure Of Aspergillus Fumigatus Mnsod
pdb|1KKC|X Chain X, Crystal Structure Of Aspergillus Fumigatus Mnsod
pdb|1KKC|Y Chain Y, Crystal Structure Of Aspergillus Fumigatus Mnsod
Length = 221
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 14/26 (53%)
Query: 71 NSLSDMYRSPPRPLPYDADPRYFRLQ 96
N++S Y PP P PYDA Y Q
Sbjct: 10 NTMSQQYTLPPLPYPYDALQPYISQQ 35
>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 = 4.5, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 14/22 (63%)
Query: 195 CSHHFHLGCIYEWMERSENCPV 216
C+H FH CI W++ + CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
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
0.318 0.132 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,989,994
Number of Sequences: 62578
Number of extensions: 259885
Number of successful extensions: 551
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 31
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 517
Number of HSP's gapped (non-prelim): 41
length of query: 227
length of database: 14,973,337
effective HSP length: 95
effective length of query: 132
effective length of database: 9,028,427
effective search space: 1191752364
effective search space used: 1191752364
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)