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= 046833
(218 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 = 67.4 bits (163), Expect = 5e-12, Method: Composition-based stats.
Identities = 26/44 (59%), Positives = 31/44 (70%)
Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
EC +CL+E GE R LP+C HGFH C+D WL SHS+CP CR
Sbjct: 7 ECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 57.4 bits (137), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 24/45 (53%), Positives = 33/45 (73%), Gaps = 1/45 (2%)
Query: 126 TECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
T CV+C+ +F + LRVLP CNH FH C+DKWL+++ +CP CR
Sbjct: 24 TLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICR 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 = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 28/52 (53%), Positives = 32/52 (61%), Gaps = 1/52 (1%)
Query: 123 GSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRHCLI 174
GS EC +C ++A GES+R LP CNH FH CI WL H SCP CR L
Sbjct: 13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSLT 63
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 22/44 (50%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
+C ICLS GE +R LP C H FH C+D+WL ++ CP CR
Sbjct: 16 KCTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 35/67 (52%), Gaps = 1/67 (1%)
Query: 104 QESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH 163
+ES+ P + + + G + C IC SE+ G+ LP C+H FH C+ WL+
Sbjct: 19 KESIDALPEILVTEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKS 77
Query: 164 SSCPKCR 170
+CP CR
Sbjct: 78 GTCPVCR 84
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC 169
C +CL +F P + L + P C H FH C+ KWL CP C
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 28/55 (50%), Gaps = 5/55 (9%)
Query: 116 STELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
S +K + EC IC+ G + +LP C H F CIDKW H +CP CR
Sbjct: 6 SGRVKQLTDEEECCICMD----GRADLILP-CAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 75 CNHAFHFHCISRWLKTRQVCP 95
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 84 CNHAFHFHCISRWLKTRQVCP 104
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 67 CNHAFHFHCISRWLKTRQVCP 87
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 57 CNHAFHFHCISRWLKTRQVCP 77
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 65 CNHAFHFHCISRWLKTRQVCP 85
>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 = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 147 CNHGFHVHCIDKWLRSHSSCP 167
CNH FH HCI +WL++ CP
Sbjct: 73 CNHAFHFHCISRWLKTRQVCP 93
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
++ +C+IC F +L C H F +CI++W++ CP CR
Sbjct: 52 NELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 94
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.8 bits (81), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
++ +C+IC F +L C H F +CI++W++ CP CR
Sbjct: 52 NELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 94
>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 = 0.019, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 4/47 (8%)
Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
++ +C+IC F +L C H F +CI++W++ CP CR
Sbjct: 63 NELQCIICSEYFIEAVTLN----CAHSFCSYCINEWMKRKIECPICR 105
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 25/44 (56%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
C+ C +E + + V +CNH FH C+ W++ ++ CP C+
Sbjct: 29 CLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72
>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 = 0.11, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 3/43 (6%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
C ICL + P LP C H F CI +W+R + +CP C+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>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 = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 116 STELKLSGSDTECVICL---SEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
+T L+ SG+ C IC+ SE L V +C H F C+ L++ ++CP CR
Sbjct: 2 TTGLRPSGT-VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 58
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 25/51 (49%), Gaps = 3/51 (5%)
Query: 123 GSDTECVICL---SEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
G+ C IC+ SE L V +C H F C+ L++ ++CP CR
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 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 = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 21/43 (48%), Gaps = 3/43 (6%)
Query: 127 ECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKC 169
C IC F ++P+C+H + CI K+L + CP C
Sbjct: 24 RCGICFEYFNIA---MIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|3NYB|A Chain A, Structure And Function Of The Polymerase Core Of Tramp, A
Rna Surveillance Complex
Length = 323
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 42/94 (44%), Gaps = 12/94 (12%)
Query: 115 YSTELKLSGSDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSH-SSCPKCRHCL 173
YST+L L GSD +CV+ SE ES L + H K L + K R +
Sbjct: 68 YSTDLYLPGSDIDCVVT-SELGGKESRNNL----YSLASHLKKKNLATEVEVVAKARVPI 122
Query: 174 IETCEE------SVGFSQTSSSEHSVVVPETVDS 201
I+ E +V F +T+ E + ++ E +D
Sbjct: 123 IKFVEPHSGIHIAVSFERTNGIEAAKLIREWLDD 156
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 28/55 (50%), Gaps = 4/55 (7%)
Query: 119 LKLSGSDTECVICL---SEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
L+ SG+ C IC+ SE L V +C H F C+ L++ ++CP CR
Sbjct: 10 LRPSGT-VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 63
>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
Length = 133
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 123 GSDT-ECVICL---SEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
GS T C IC+ SE L V +C H F C+ L++ ++CP CR
Sbjct: 4 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 55
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%), Gaps = 4/52 (7%)
Query: 123 GSDT-ECVICL---SEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCR 170
GS T C IC+ SE L V +C H F C+ L++ ++CP CR
Sbjct: 69 GSGTVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCR 120
>pdb|1ESO|A Chain A, Monomeric Cu,Zn Superoxide Dismutase From Escherichia Coli
Length = 154
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/22 (50%), Positives = 14/22 (63%), Gaps = 2/22 (9%)
Query: 134 EFAPGESLRVLPKCNHGFHVHC 155
EF+P L+ LP HGFH+H
Sbjct: 32 EFSP--DLKALPPGEHGFHIHA 51
>pdb|4GY5|A Chain A, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|B Chain B, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|C Chain C, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
pdb|4GY5|D Chain D, Crystal Structure Of The Tandem Tudor Domain And Plant
Homeodomain Of Uhrf1 With Histone H3k9me3
Length = 241
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSS-----CPKCRH 171
C +C P + L + +C+ FH++C+D L S S CP+CR+
Sbjct: 193 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 240
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 20/48 (41%)
Query: 124 SDTECVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSSCPKCRH 171
S C ICL + + + C H H C ++ L+ CP C H
Sbjct: 4 SQQNCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMH 51
>pdb|1V87|A Chain A, Solution Structure Of The Ring-H2 Finger Domain Of Mouse
Deltex Protein 2
Length = 114
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 20/72 (27%)
Query: 99 SSGIQQESLRDFPVVNYSTELKLSGSDTECVICLSEFAPGES--------------LRVL 144
SSG ++ +R Y+ ELK++ + +C+IC+ + A + L
Sbjct: 5 SSGEPEQVIR-----KYTEELKVA-PEEDCIICMEKLAVASGYSDMTDSKALGPMVVGRL 58
Query: 145 PKCNHGFHVHCI 156
KC+H FH+ C+
Sbjct: 59 TKCSHAFHLLCL 70
>pdb|3ASK|A Chain A, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|B Chain B, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|C Chain C, Structure Of Uhrf1 In Complex With Histone Tail
pdb|3ASK|D Chain D, Structure Of Uhrf1 In Complex With Histone Tail
Length = 226
Score = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 128 CVICLSEFAPGESLRVLPKCNHGFHVHCIDKWLRSHSS-----CPKCRH 171
C +C P + L + +C+ FH++C+D L S S CP+CR+
Sbjct: 177 CHLCGGRQDPDKQL-MCDECDMAFHIYCLDPPLSSVPSEDEWYCPECRN 224
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
0.322 0.135 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,593,729
Number of Sequences: 62578
Number of extensions: 243007
Number of successful extensions: 509
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 470
Number of HSP's gapped (non-prelim): 54
length of query: 218
length of database: 14,973,337
effective HSP length: 95
effective length of query: 123
effective length of database: 9,028,427
effective search space: 1110496521
effective search space used: 1110496521
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)