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= 028791
(203 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Ring Finger Protein 126
Length = 78
Score = 52.8 bits (125), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 28/43 (65%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR 198
C VC E++ + V +LPC+H +H C++PWL H CP CR+
Sbjct: 18 CPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCRK 60
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 49.3 bits (116), Expect = 1e-06, Method: Composition-based stats.
Identities = 20/48 (41%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
C+VCL E ++ + LP C H +H++CV WL +H CP CR +V
Sbjct: 8 CAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVVV 55
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 20/48 (41%), Positives = 31/48 (64%)
Query: 150 KSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
+S +C VC+ +F+ Q + LPC+H++H+ CV WL A+ CP CR
Sbjct: 20 QSEQTLCVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 67
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 27/48 (56%)
Query: 154 KICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPAL 201
++C+VCLE+F+ + PC H +H C++ WL CP C P L
Sbjct: 16 ELCAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 47.0 bits (110), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 26/42 (61%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
C++CL +E + V RLPC H +H CV WL + +CP CR
Sbjct: 17 CTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 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 = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 23/51 (45%)
Query: 147 RGSKSNTKICSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCR 197
G+ C +C E+ + T LPC H +H CV WL CP CR
Sbjct: 34 HGAVGQEMCCPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 36.6 bits (83), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
C +C E F E VT L C+H + S C+ W+ +CP CR+
Sbjct: 56 CIICSEYFIE--AVT-LNCAHSFCSYCINEWMKRKIECPICRKD 96
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRP 199
C +C E F E VT L C+H + S C+ W+ +CP CR+
Sbjct: 56 CIICSEYFIE--AVT-LNCAHSFCSYCINEWMKRKIECPICRKD 96
>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 = 0.016, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRR 198
C +C E F E L C+H + S C+ W+ +CP CR+
Sbjct: 67 CIICSEYFIE---AVTLNCAHSFCSYCINEWMKRKIECPICRK 106
>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 = 33.1 bits (74), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYC 196
C +C E F + + CSH Y S C+ +L+ QCP C
Sbjct: 25 CGICFEYFNIAMIIPQ--CSHNYCSLCIRKFLSYKTQCPTC 63
>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 = 33.1 bits (74), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
C +CLE+ LPC H + C+ W+ +P CP C+ P
Sbjct: 8 CPICLEDPSNYS--MALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>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 = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 23/53 (43%), Gaps = 1/53 (1%)
Query: 149 SKSNTKICSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAHPQCPYCRRPA 200
S + C +CLE+ + V LPC H H C L +CP C P+
Sbjct: 1 GSSGSSGCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGPS 53
>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 = 0.31, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 24/42 (57%)
Query: 161 EEFQEEQPVTRLPCSHKYHSDCVLPWLAAHPQCPYCRRPALV 202
E QE+ V C+H +H+ C+ W+ + +CP C++ +V
Sbjct: 35 ENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQDWVV 76
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 172 LPCSHKYHSDCVLPWLAAHPQCPYCR 197
LPC+H + C+ W H CP CR
Sbjct: 30 LPCAHSFCQKCIDKWSDRHRNCPICR 55
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%), Gaps = 4/47 (8%)
Query: 156 CSVCLEEFQEEQPVTRLP-CSHKYHSDCVLPWLAAHPQ---CPYCRR 198
C +C+E F EEQ +L C H C+ LA+ CP+C +
Sbjct: 18 CPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
>pdb|3L11|A Chain A, Crystal Structure Of The Ring Domain Of Rnf168
Length = 115
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 24/49 (48%), Gaps = 4/49 (8%)
Query: 156 CSVCLEEFQEEQPVTRLPCSHKYHSDCVLPWLA-AHPQCPYCRRPALVW 203
C +C+E E PVT LPC+H C + A CP+CRR W
Sbjct: 18 CGICMEILVE--PVT-LPCNHTLCKPCFQSTVEKASLCCPFCRRRVSSW 63
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 27.3 bits (59), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 75 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 104
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 19/42 (45%), Gaps = 1/42 (2%)
Query: 156 CSVCLEEFQEEQPVTR-LPCSHKYHSDCVLPWLAAHPQCPYC 196
C +CLE+ + V LPC H H C L +CP C
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 56 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 85
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 151 SNTKICSVCLEEFQEEQPVTRL----PCSHKYHSDCVLPWLAAHPQCPYCRR 198
S T C +C++ + E RL C H + S C+ L CP CR+
Sbjct: 13 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 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 = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 151 SNTKICSVCLEEFQEEQPVTRL----PCSHKYHSDCVLPWLAAHPQCPYCRR 198
S T C +C++ + E RL C H + S C+ L CP CR+
Sbjct: 8 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 59
>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 = 26.9 bits (58), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 64 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 93
>pdb|2YT5|A Chain A, Solution Structure Of The Phd Domain Of Metal-Response
Element-Binding Transcription Factor 2
Length = 66
Score = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 13/40 (32%), Positives = 20/40 (50%), Gaps = 2/40 (5%)
Query: 148 GSKSNTKICSVCLEEFQE--EQPVTRLPCSHKYHSDCVLP 185
GS ++ +C++C EE+ E + V C YH C P
Sbjct: 1 GSSGSSGVCTICQEEYSEAPNEMVICDKCGQGYHQLCHTP 40
>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 = 26.9 bits (58), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 66 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 95
>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 = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 64 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 93
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 26.6 bits (57), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 58 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 87
>pdb|2RHS|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
pdb|2RHS|D Chain D, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 800
Score = 26.6 bits (57), Expect = 9.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 130 RLGSKLLWGSHLRHLKLRGSKSNTKICSV 158
++G +L G ++ KLRG +S ICS+
Sbjct: 94 KVGGRLPGGIKIKRAKLRGERSEGMICSL 122
>pdb|2RHQ|B Chain B, Phers From Staphylococcus Haemolyticus- Rational Protein
Engineering And Inhibitor Studies
Length = 795
Score = 26.6 bits (57), Expect = 9.1, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 130 RLGSKLLWGSHLRHLKLRGSKSNTKICSV 158
++G +L G ++ KLRG +S ICS+
Sbjct: 90 KVGGRLPGGIKIKRAKLRGERSEGMICSL 118
>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 = 26.6 bits (57), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 14/30 (46%)
Query: 165 EEQPVTRLPCSHKYHSDCVLPWLAAHPQCP 194
EE V C+H +H C+ WL CP
Sbjct: 48 EECTVAWGVCNHAFHFHCISRWLKTRQVCP 77
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 151 SNTKICSVCLEEFQEEQPVTRL----PCSHKYHSDCVLPWLAAHPQCPYCRR 198
S T C +C++ + E RL C H + S C+ L CP CR+
Sbjct: 5 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 56
Score = 26.6 bits (57), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 151 SNTKICSVCLEEFQEEQPVTRL----PCSHKYHSDCVLPWLAAHPQCPYCRR 198
S T C +C++ + E RL C H + S C+ L CP CR+
Sbjct: 70 SGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRK 121
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
0.320 0.133 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,973,891
Number of Sequences: 62578
Number of extensions: 232935
Number of successful extensions: 542
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 517
Number of HSP's gapped (non-prelim): 41
length of query: 203
length of database: 14,973,337
effective HSP length: 94
effective length of query: 109
effective length of database: 9,091,005
effective search space: 990919545
effective search space used: 990919545
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 49 (23.5 bits)