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= 029544
(191 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 = 64.3 bits (155), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 24/47 (51%), Positives = 34/47 (72%)
Query: 88 ECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPL 134
EC++CL E +D E R +P+CGH FH C+D+WL +TCP+CRL +
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTV 53
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 40/61 (65%), Gaps = 2/61 (3%)
Query: 71 IPTMKFNQEAFKSVEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVC 130
+P+ +FN +S E C +C+ +++ +++LR++P C H FH C+D WL+ TCP+C
Sbjct: 9 LPSYRFNPNNHQS-EQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPIC 66
Query: 131 R 131
R
Sbjct: 67 R 67
>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 = 52.0 bits (123), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 37/71 (52%), Gaps = 1/71 (1%)
Query: 68 VAAIPTMKFNQEAFKSVEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTC 127
+ A+P + ++ ++ C IC EY +V +P C H FH C+ IWL+K TC
Sbjct: 22 IDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTC 80
Query: 128 PVCRLPLQDPL 138
PVCR PL
Sbjct: 81 PVCRCMFPPPL 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 = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 88 ECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPL 134
EC +C +Y E +R +P C H FH +CI WL + +CPVCR L
Sbjct: 17 ECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 31/51 (60%), Gaps = 1/51 (1%)
Query: 88 ECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQDPL 138
+C+ICL ++ E +R +P C H FH C+D WL CP+CR+ ++ L
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDIEAQL 65
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 44.3 bits (103), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 30/46 (65%), Gaps = 1/46 (2%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPL 134
C++CL +++ ++ L I P C H+FH C+ WL + CP+C +P+
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLCNMPV 62
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 40.4 bits (93), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 27/51 (52%), Gaps = 5/51 (9%)
Query: 84 VEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPL 134
++ EC IC+ D I+P C HSF CID W + CP+CRL +
Sbjct: 13 TDEEECCICM----DGRADLILP-CAHSFCQKCIDKWSDRHRNCPICRLQM 58
>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 = 40.0 bits (92), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 13/89 (14%)
Query: 82 KSVEDA-ECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQDPLGR 140
K+++D C IC + + I+PQC H++ CI +L KT CP C + + +P +
Sbjct: 17 KTIDDLLRCGICFEYFN---IAMIIPQCSHNYCSLCIRKFLSYKTQCPTCCVTVTEPDLK 73
Query: 141 KHAREATFSMAQAVDSPETSINHSRQWLL 169
+ + +D S+N +R LL
Sbjct: 74 NN---------RILDELVKSLNFARNHLL 93
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 28/52 (53%), Gaps = 4/52 (7%)
Query: 86 DAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQDP 137
+ +C IC EY + + C HSF CI+ W+++K CP+CR ++
Sbjct: 53 ELQCIIC-SEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIKSK 100
>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 = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 27/47 (57%), Gaps = 3/47 (6%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQ 135
C ICL +D + C H+F CI W+R+ TCP+C++P++
Sbjct: 8 CPICL---EDPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPVE 51
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPVCRLPLQDP 137
C HSF CI+ W+++K CP+CR ++
Sbjct: 71 CAHSFCSYCINEWMKRKIECPICRKDIKSK 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 = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 28/50 (56%), Gaps = 4/50 (8%)
Query: 86 DAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQ 135
+ +C IC EY + + C HSF CI+ W+++K CP+CR ++
Sbjct: 64 ELQCIIC-SEYF---IEAVTLNCAHSFCSYCINEWMKRKIECPICRKDIK 109
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 37.7 bits (86), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 29/48 (60%), Gaps = 1/48 (2%)
Query: 84 VEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCR 131
V DA C C E + ++ + + +C HSFH C+ +W+++ CP+C+
Sbjct: 25 VMDA-CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
Tripartite Motif-Containing Protein 39
Length = 58
Score = 33.9 bits (76), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 21/48 (43%), Positives = 28/48 (58%), Gaps = 7/48 (14%)
Query: 86 DAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIW---LRKKTTCPVC 130
+A CS+CL EY + V+ +CGH+F ACI W L + CPVC
Sbjct: 15 EASCSVCL-EYLKEPVII---ECGHNFCKACITRWWEDLERDFPCPVC 58
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 33.1 bits (74), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 36/94 (38%), Gaps = 8/94 (8%)
Query: 87 AECSICLGEYQD---KEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQDPLGRKH- 142
C IC+ Y + L + +CGH F C+ L+ TCP CR + R H
Sbjct: 8 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKINHK--RYHP 65
Query: 143 --AREATFSMAQAVDSPETSINHSRQWLLTHLGH 174
T S +D + + R + T GH
Sbjct: 66 IYIGSGTVSCPICMDGYSEIVQNGRLIVSTECGH 99
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 87 AECSICLGEYQD---KEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCR 131
C IC+ Y + L + +CGH F C+ L+ TCP CR
Sbjct: 73 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>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 = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLP 133
C ICL + V+ + CGH H C + L++ CP+C P
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCSGP 52
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 32.3 bits (72), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 24/49 (48%)
Query: 82 KSVEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVC 130
++V C ICL + V+ + CGH H C + L++ CP+C
Sbjct: 1 ENVSQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|3LRQ|A Chain A, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|B Chain B, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|C Chain C, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d.
pdb|3LRQ|D Chain D, Crystal Structure Of The U-Box Domain Of Human Ubiquitin-
Protein Ligase (E3), Northeast Structural Genomics
Consortium Target Hr4604d
Length = 100
Score = 32.3 bits (72), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 5/61 (8%)
Query: 77 NQEAFKSVEDA-ECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWL-RKKTTCPVCRLPL 134
++++ +S+ + C IC + +D R+ P C +CI WL ++ CP CR PL
Sbjct: 12 DEQSVESIAEVFRCFICXEKLRDA---RLCPHCSKLCCFSCIRRWLTEQRAQCPHCRAPL 68
Query: 135 Q 135
Q
Sbjct: 69 Q 69
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.0 bits (71), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>pdb|2ECW|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Tripartite Motif Protein 30
Length = 85
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 27/57 (47%), Gaps = 14/57 (24%)
Query: 85 EDAECSICLGEYQDKEVLR--IMPQCGHSFHLACIDIWLRK------KTTCPVCRLP 133
E+ C ICL E+L+ + C HSF ACI + K CPVCR+P
Sbjct: 18 EEVTCPICL------ELLKEPVSADCNHSFCRACITLNYESNRNTDGKGNCPVCRVP 68
>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 = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 87 AECSICLGEYQD---KEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCR 131
C IC+ Y + L + +CGH F C+ L+ TCP CR
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>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 = 31.6 bits (70), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + 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 = 31.6 bits (70), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 31.6 bits (70), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>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 = 31.2 bits (69), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 108 CGHSFHLACIDIWLRKKTTCPV 129
C H+FH CI WL+ + CP+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 31.2 bits (69), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 87 AECSICLGEYQD---KEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCR 131
C IC+ Y + L + +CGH F C+ L+ TCP CR
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.8 bits (68), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 87 AECSICLGEYQD---KEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCR 131
C IC+ Y + L + +CGH F C+ L+ TCP CR
Sbjct: 4 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 51
>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
Finger) Domain Of Tripartite Motif-Containing Protein 5
Length = 85
Score = 30.4 bits (67), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 10/57 (17%)
Query: 85 EDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRK------KTTCPVCRLPLQ 135
E+ C ICL L CGHSF AC+ +K +++CPVCR+ Q
Sbjct: 18 EEVTCPICLELLTQPLSL----DCGHSFCQACLTANHKKSMLDKGESSCPVCRISYQ 70
>pdb|3C5W|P Chain P, Complex Between Pp2a-Specific Methylesterase Pme-1 And
Pp2a Core Enzyme
Length = 310
Score = 30.0 bits (66), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 20/30 (66%)
Query: 84 VEDAECSICLGEYQDKEVLRIMPQCGHSFH 113
V+ + + +G+ Q K ++++PQCGH+ H
Sbjct: 247 VDRLDKDLTIGQMQGKFQMQVLPQCGHAVH 276
>pdb|3C5V|A Chain A, Pp2a-Specific Methylesterase Apo Form (Pme)
Length = 316
Score = 30.0 bits (66), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 10/30 (33%), Positives = 20/30 (66%)
Query: 84 VEDAECSICLGEYQDKEVLRIMPQCGHSFH 113
V+ + + +G+ Q K ++++PQCGH+ H
Sbjct: 253 VDRLDKDLTIGQMQGKFQMQVLPQCGHAVH 282
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVC 130
C +C G + D + +C HSF CI +L CP+C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|1G25|A Chain A, Solution Structure Of The N-Terminal Domain Of The Human
Tfiih Mat1 Subunit
Length = 65
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 30/54 (55%), Gaps = 2/54 (3%)
Query: 84 VEDAECSIC-LGEYQDKEVLRIMPQCGHSFHLACID-IWLRKKTTCPVCRLPLQ 135
++D C C +Y++ + ++ CGH+ +C+D +++R CP C PL+
Sbjct: 1 MDDQGCPRCKTTKYRNPSLKLMVNVCGHTLCESCVDLLFVRGAGNCPECGTPLR 54
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 28.5 bits (62), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVC 130
C +C G + D + +C HSF CI +L CP+C
Sbjct: 18 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 56
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 28.1 bits (61), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 20/42 (47%), Gaps = 3/42 (7%)
Query: 89 CSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVC 130
C +C G + D + +C HSF CI +L CP+C
Sbjct: 14 CVLCGGYFIDATTI---IECLHSFCKTCIVRYLETSKYCPIC 52
>pdb|4G9I|A Chain A, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|B Chain B, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|C Chain C, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|D Chain D, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|E Chain E, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|F Chain F, Crystal Structure Of T.Kodakarensis Hypf
Length = 772
Score = 27.7 bits (60), Expect = 3.9, Method: Composition-based stats.
Identities = 22/73 (30%), Positives = 29/73 (39%), Gaps = 12/73 (16%)
Query: 87 AECSICLGEYQDKEVLR------IMPQCGHSFHLACIDIWLRKKTT------CPVCRLPL 134
A C CL E D R + CG F + + R+ TT C CR
Sbjct: 107 AICDDCLRELFDPTNKRYXYPFIVCTNCGPRFTIIEDLPYDRENTTXKEFPXCDFCRSEY 166
Query: 135 QDPLGRKHAREAT 147
+DPL R++ E T
Sbjct: 167 EDPLNRRYHAEPT 179
>pdb|2EGP|A Chain A, Solution Structure Of The Ring-Finger Domain From Human
Tripartite Motif Protein 34
Length = 79
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 11/55 (20%)
Query: 85 EDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRK-------KTTCPVCRL 132
E+ C ICL + L CGHS ACI + ++ K++CPVC +
Sbjct: 11 EEVTCPICLELLTEPLSL----DCGHSLCRACITVSNKEAVTSMGGKSSCPVCGI 61
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 27.3 bits (59), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/57 (26%), Positives = 27/57 (47%), Gaps = 5/57 (8%)
Query: 77 NQEAFKSVEDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTT---CPVC 130
N +A + V EC IC+ + ++++ + CGH+ C++ L CP C
Sbjct: 8 NLDALREV--LECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFC 62
>pdb|1SZH|A Chain A, Crystal Structure Of C. Elegans Her-1
pdb|1SZH|B Chain B, Crystal Structure Of C. Elegans Her-1
Length = 161
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 30/78 (38%), Gaps = 6/78 (7%)
Query: 45 IESGIDLEQPAPGHRINGLEPVLVAAIPTMKFNQEAFKSVEDAECSICLGEYQDKEVLRI 104
I G D + PG+ L+ VL A P K N ++D+ C G Q+ R
Sbjct: 37 IRCGYDRDPKLPGYVYKCLQNVLFAKEPKKKIN------LDDSVCCSVFGNDQEDSGRRC 90
Query: 105 MPQCGHSFHLACIDIWLR 122
+C + ID R
Sbjct: 91 ENRCKNLMTSPSIDAATR 108
>pdb|2L43|A Chain A, Structural Basis For Histone Code Recognition By
Brpf2-Phd1 Finger
Length = 88
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 85 EDAECSICL-GEYQDKEVLRIMPQCGHSFHLACIDI 119
EDA CSIC+ GE Q+ V+ C + H C +
Sbjct: 24 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGV 59
>pdb|4AUQ|B Chain B, Structure Of Birc7-Ubch5b-Ub Complex.
pdb|4AUQ|E Chain E, Structure Of Birc7-Ubch5b-Ub Complex
Length = 62
Score = 26.9 bits (58), Expect = 6.5, Method: Composition-based stats.
Identities = 15/51 (29%), Positives = 22/51 (43%), Gaps = 8/51 (15%)
Query: 85 EDAECSICLGEYQDKEVLRIMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQ 135
E+ C +CL D+ V + CGH C CP+CR P++
Sbjct: 12 EERTCKVCL----DRAVSIVFVPCGHLVCAECAP----GLQLCPICRAPVR 54
>pdb|2KU3|A Chain A, Solution Structure Of Brd1 Phd1 Finger
Length = 71
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 85 EDAECSICL-GEYQDKEVLRIMPQCGHSFHLACIDI 119
EDA CSIC+ GE Q+ V+ C + H C +
Sbjct: 15 EDAVCSICMDGESQNSNVILFCDMCNLAVHQECYGV 50
>pdb|4A6F|B Chain B, Crystal Structure Of Slm1-ph Domain In Complex With
Phosphoserine
Length = 120
Score = 26.6 bits (57), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 104 IMPQCGHSFHLACIDIWLRKKTTCPVCRLPLQDPLGRKHAREATFSMAQAVDSPETSINH 163
+ P H F A RKK PV L L + +H+R+ + S + S + H
Sbjct: 29 LTPNFLHEFKTAD-----RKKDLVPVMSLALSECTVTEHSRKNSTSSPNSTGSDAKFVLH 83
Query: 164 SRQWLLTHLGHPEV 177
++Q + GH V
Sbjct: 84 AKQNGIIRRGHNYV 97
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
0.321 0.136 0.433
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,670,064
Number of Sequences: 62578
Number of extensions: 206366
Number of successful extensions: 485
Number of sequences better than 100.0: 64
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 438
Number of HSP's gapped (non-prelim): 69
length of query: 191
length of database: 14,973,337
effective HSP length: 93
effective length of query: 98
effective length of database: 9,153,583
effective search space: 897051134
effective search space used: 897051134
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: 48 (23.1 bits)