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= 016797
(382 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 = 56.2 bits (134), Expect = 3e-08, Method: Composition-based stats.
Identities = 25/50 (50%), Positives = 29/50 (58%), Gaps = 1/50 (2%)
Query: 230 DCSECPICLEEFHVGNEVRGLP-CAHNFHIECIDEWLRLNVKCPRCRCSV 278
D EC +CL E G E R LP C H FH EC+D WL + CP CR +V
Sbjct: 4 DGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 56.2 bits (134), Expect = 3e-08, Method: Composition-based stats.
Identities = 23/46 (50%), Positives = 28/46 (60%)
Query: 233 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 278
+C ICL G +VR LPC H FH C+D+WL N KCP CR +
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>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 = 53.5 bits (127), Expect = 2e-07, Method: Composition-based stats.
Identities = 29/76 (38%), Positives = 40/76 (52%), Gaps = 1/76 (1%)
Query: 207 AQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLR 266
A +E+++AL + L AV + CPIC E+ G+ LPC H FH C+ WL+
Sbjct: 17 ASKESIDALPEILVTEDHGAVGQEMC-CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQ 75
Query: 267 LNVKCPRCRCSVFPNL 282
+ CP CRC P L
Sbjct: 76 KSGTCPVCRCMFPPPL 91
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 29/46 (63%)
Query: 233 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 278
ECP+C E++ +G VR LPC H FH CI WL + CP CR S+
Sbjct: 17 ECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 218 ELPKFRLKAVPTDCSE--CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
+LP +R + C +C+ +F +R LPC H FH +C+D+WL+ N CP CR
Sbjct: 8 QLPSYRFNPNNHQSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
Query: 276 CSVFPN 281
P+
Sbjct: 68 ADSGPS 73
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 47.8 bits (112), Expect = 1e-05, Method: Composition-based stats.
Identities = 22/55 (40%), Positives = 31/55 (56%), Gaps = 3/55 (5%)
Query: 234 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSVFPNLDLSALS 288
C +CLE+F +E+ PC H FH +C+ +WL + CP C P L L+ LS
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCN---MPVLQLAQLS 69
>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 = 43.9 bits (102), Expect = 1e-04, Method: Composition-based stats.
Identities = 20/44 (45%), Positives = 24/44 (54%), Gaps = 1/44 (2%)
Query: 232 SECPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRC 274
S CPICLE+ H V LPC H H C +E L+ +CP C
Sbjct: 6 SGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 42.7 bits (99), Expect = 3e-04, Method: Composition-based stats.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 229 TDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
TD EC IC++ G LPCAH+F +CID+W + CP CR
Sbjct: 13 TDEEECCICMD----GRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 32/110 (29%), Positives = 53/110 (48%), Gaps = 14/110 (12%)
Query: 166 EYGVLLDMIRVPEWAFEAAGQEMRGIGQDTAAYHPGLYLTAAQREAVEALIQELPKFRLK 225
E+ L++ + + FEA Q A + L T ++E ++A +E+ +
Sbjct: 10 EHWALMEELNRSKKDFEAIIQ----------AKNKELEQTKEEKEKMQAQKEEVLSH-MN 58
Query: 226 AVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
V + +C IC E F E L CAH+F CI+EW++ ++CP CR
Sbjct: 59 DVLENELQCIICSEYFI---EAVTLNCAHSFCSYCINEWMKRKIECPICR 105
>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 = 41.6 bits (96), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/45 (46%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 234 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCRCSV 278
CPICLE+ N LPC H F CI W+R N CP C+ V
Sbjct: 8 CPICLED--PSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 197 AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNF 256
A + L T ++E ++A +E+ + V + +C IC E F E L CAH+F
Sbjct: 20 AKNKELEQTKEEKEKMQAQKEEVLSH-MNDVLENELQCIICSEYFI---EAVTLNCAHSF 75
Query: 257 HIECIDEWLRLNVKCPRCR 275
CI+EW++ ++CP CR
Sbjct: 76 CSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/79 (32%), Positives = 42/79 (53%), Gaps = 4/79 (5%)
Query: 197 AYHPGLYLTAAQREAVEALIQELPKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNF 256
A + L T ++E ++A +E+ + V + +C IC E F E L CAH+F
Sbjct: 20 AKNKELEQTKEEKEKMQAQKEEVLSH-MNDVLENELQCIICSEYFI---EAVTLNCAHSF 75
Query: 257 HIECIDEWLRLNVKCPRCR 275
CI+EW++ ++CP CR
Sbjct: 76 CSYCINEWMKRKIECPICR 94
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 234 CPICLEEFHVGNEV-RGLPCAHNFHIECIDEWLRLNVKCPRC 274
CPICLE+ H V LPC H H C +E L+ +CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2YSL|A Chain A, Solution Structure Of The Ring Domain (1-66) From
Tripartite Motif-containing Protein 31
Length = 73
Score = 33.1 bits (74), Expect = 0.23, Method: Composition-based stats.
Identities = 18/51 (35%), Positives = 27/51 (52%), Gaps = 6/51 (11%)
Query: 234 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV---KCPRCRCSVFPN 281
CPICL+ + + + C HNF ++CI + + KCP C+ SV N
Sbjct: 23 CPICLD---ILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLCKTSVRKN 70
>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 = 0.30, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 228 PTDCSECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
P+ CPIC++ + G + C H F +C+ + L+ CP CR
Sbjct: 7 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 32.7 bits (73), Expect = 0.30, Method: Composition-based stats.
Identities = 15/52 (28%), Positives = 24/52 (46%), Gaps = 4/52 (7%)
Query: 228 PTDCSECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
P+ CPIC++ + G + C H F +C+ + L+ CP CR
Sbjct: 12 PSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 31.2 bits (69), Expect = 0.97, Method: Composition-based stats.
Identities = 17/47 (36%), Positives = 26/47 (55%), Gaps = 6/47 (12%)
Query: 233 ECPICLEEFHVGNEVRG--LPCAHNFHIECIDEWLRLN---VKCPRC 274
ECPIC+E F ++R L C H +C+++ L + V+CP C
Sbjct: 17 ECPICMESF-TEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|1E4U|A Chain A, N-Terminal Ring Finger Domain Of Human Not-4
Length = 78
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 17/50 (34%), Positives = 25/50 (50%), Gaps = 6/50 (12%)
Query: 230 DCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL----NVKCPRCR 275
D ECP+C+E + +++ PC + I C W R+ N CP CR
Sbjct: 10 DPVECPLCMEPLEI-DDINFFPCTCGYQI-CRFCWHRIRTDENGLCPACR 57
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 14/46 (30%), Positives = 22/46 (47%), Gaps = 4/46 (8%)
Query: 234 CPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
CPIC++ + G + C H F +C+ + L+ CP CR
Sbjct: 6 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 2/55 (3%)
Query: 220 PKFRLKAVPTDCSECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRC 274
P + D C IC E F++ + C+HN+ CI ++L +CP C
Sbjct: 11 PGLAVMKTIDDLLRCGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 30.4 bits (67), Expect = 1.8, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 84 CNHAFHFHCISRWLKTRQVCP 104
>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 = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>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 = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 75 CNHAFHFHCISRWLKTRQVCP 95
>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 = 30.4 bits (67), Expect = 1.9, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>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 = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 65 CNHAFHFHCISRWLKTRQVCP 85
>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 = 29.6 bits (65), Expect = 2.6, Method: Composition-based stats.
Identities = 10/21 (47%), Positives = 11/21 (52%)
Query: 252 CAHNFHIECIDEWLRLNVKCP 272
C H FH CI WL+ CP
Sbjct: 57 CNHAFHFHCISRWLKTRQVCP 77
>pdb|1UR6|B Chain B, Nmr Based Structural Model Of The Ubch5b-Cnot4 Complex
Length = 52
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 233 ECPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRL----NVKCPRCR 275
ECP+C+E + +++ PC + I C W R+ N CP CR
Sbjct: 2 ECPLCMEPLEI-DDINFFPCTCGYQI-CRFCWHRIRTDENGLCPACR 46
>pdb|2YSJ|A Chain A, Solution Structure Of The Ring Domain (1-56) From
Tripartite Motif-containing Protein 31
Length = 63
Score = 28.1 bits (61), Expect = 7.5, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 23/44 (52%), Gaps = 6/44 (13%)
Query: 234 CPICLEEFHVGNEVRGLPCAHNFHIECIDEWLRLNV---KCPRC 274
CPICL+ + + + C HNF ++CI + + KCP C
Sbjct: 23 CPICLD---ILQKPVTIDCGHNFCLKCITQIGETSCGFFKCPLC 63
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 233 ECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
CPIC++ + G + C H F +C+ + L+ CP CR
Sbjct: 9 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 28.1 bits (61), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 22/47 (46%), Gaps = 4/47 (8%)
Query: 233 ECPICLEEF----HVGNEVRGLPCAHNFHIECIDEWLRLNVKCPRCR 275
CPIC++ + G + C H F +C+ + L+ CP CR
Sbjct: 74 SCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
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
0.326 0.139 0.464
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,761,505
Number of Sequences: 62578
Number of extensions: 400719
Number of successful extensions: 1005
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 978
Number of HSP's gapped (non-prelim): 35
length of query: 382
length of database: 14,973,337
effective HSP length: 101
effective length of query: 281
effective length of database: 8,652,959
effective search space: 2431481479
effective search space used: 2431481479
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 52 (24.6 bits)