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= 026690
(235 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 = 62.8 bits (151), Expect = 1e-10, Method: Composition-based stats.
Identities = 26/51 (50%), Positives = 34/51 (66%), Gaps = 1/51 (1%)
Query: 185 GERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
G + C VC +D+ LGE+ R LP C+H+FH CI WL H SCP+CR+ L
Sbjct: 13 GSGLECPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKSL 62
>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 = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 43/70 (61%), Gaps = 3/70 (4%)
Query: 163 TGESVDKIPKITITDKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222
+ ES+D +P+I +T+ + A G+ + C +C ++ G+ A LP CHH FH PC+ WL
Sbjct: 18 SKESIDALPEILVTEDHG--AVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWL 74
Query: 223 LGHASCPLCR 232
+CP+CR
Sbjct: 75 QKSGTCPVCR 84
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 60.5 bits (145), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 26/50 (52%), Positives = 33/50 (66%)
Query: 183 ASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
A + V C+VCL + + GE AR LP C H FH C+D WL H++CPLCR
Sbjct: 1 AMDDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 58.2 bits (139), Expect = 4e-09, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 31/46 (67%), Gaps = 1/46 (2%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
C++CL + GE R LP C H+FH C+D+WL+ + CP+CR D+
Sbjct: 17 CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 57.4 bits (137), Expect = 7e-09, Method: Composition-based stats.
Identities = 23/49 (46%), Positives = 32/49 (65%), Gaps = 1/49 (2%)
Query: 186 ERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCRRD 234
E+ C VC+ DF+ + R LP C+H FH C+DKWL + +CP+CR D
Sbjct: 22 EQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRAD 69
>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: Composition-based stats.
Identities = 19/42 (45%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231
C+VCL+DF+ + P C H FH C+ KWL CPLC
Sbjct: 18 CAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC 58
>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 = 36.6 bits (83), Expect = 0.011, Method: Composition-based stats.
Identities = 16/43 (37%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLCR 232
C +CL+D + +LP C H F CI +W+ + +CPLC+
Sbjct: 8 CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 208 HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
+C H F CI++W+ CP+CR+D+
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 35.4 bits (80), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 208 HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
+C H F CI++W+ CP+CR+D+
Sbjct: 70 NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
Northeast Structural Genomics Consortium Target Ht2b
Length = 52
Score = 35.0 bits (79), Expect = 0.032, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 20/43 (46%)
Query: 189 SCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231
+C +CL+D + C H+ H C ++ L CPLC
Sbjct: 7 NCPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>pdb|2CT2|A Chain A, Solution Structure Of The Ring Domain Of The Tripartite
Motif Protein 32
Length = 88
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 27/57 (47%), Gaps = 3/57 (5%)
Query: 180 NIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---LGHASCPLCRR 233
N+DA E + C +C++ F + L HC H C++K L + CP C +
Sbjct: 8 NLDALREVLECPICMESFTEEQLRPKLLHCGHTICRQCLEKLLASSINGVRCPFCSK 64
>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 = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 11/28 (39%), Positives = 18/28 (64%)
Query: 208 HCHHMFHIPCIDKWLLGHASCPLCRRDL 235
+C H F CI++W+ CP+CR+D+
Sbjct: 81 NCAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 15/27 (55%), Positives = 17/27 (62%), Gaps = 1/27 (3%)
Query: 206 LPHCHHMFHIPCIDKWLLGHASCPLCR 232
LP C H F CIDKW H +CP+CR
Sbjct: 30 LP-CAHSFCQKCIDKWSDRHRNCPICR 55
>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 = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 28/57 (49%), Gaps = 4/57 (7%)
Query: 177 DKNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGH-ASCPLCR 232
D+ ++++ E C +C + + AR PHC + CI +WL A CP CR
Sbjct: 12 DEQSVESIAEVFRCFICXEKLR---DARLCPHCSKLCCFSCIRRWLTEQRAQCPHCR 65
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPLDNREW 110
>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 = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPLDNREW 101
>pdb|4ATE|A Chain A, High Resolution Crystal Structure Of Beta-Porphyranase A
From Zobellia Galactanivorans
Length = 266
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/36 (44%), Positives = 21/36 (58%)
Query: 4 YAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGN 39
Y Y +RF SSLS+ +F+ RV +F V IGN
Sbjct: 102 YYYEARFKASSLSMTSSFWFRVGQFSEIDVIEHIGN 137
>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 = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREW 99
>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 = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPLDNREW 99
>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 = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPLDNREW 91
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPLDNREW 93
>pdb|2XEU|A Chain A, Ring Domain
Length = 64
Score = 31.6 bits (70), Expect = 0.41, Method: Composition-based stats.
Identities = 15/54 (27%), Positives = 27/54 (50%), Gaps = 3/54 (5%)
Query: 185 GERVSCSVCLQDF-QLGETARSL--PHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
G VSC +C+ + ++ + R + C H+F C+ L +CP CR+ +
Sbjct: 1 GAMVSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 54
>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 = 0.52, Method: Compositional matrix adjust.
Identities = 12/27 (44%), Positives = 15/27 (55%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH CI +WL CPL R+
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPLDNREW 83
>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
Ring-Box Protein 2
Length = 81
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 17/27 (62%)
Query: 209 CHHMFHIPCIDKWLLGHASCPLCRRDL 235
C+H FH C+ W+ + CPLC++D
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQQDW 74
>pdb|1JM7|A Chain A, Solution Structure Of The Brca1/bard1 Ring-domain
Heterodimer
Length = 112
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 32/61 (52%), Gaps = 7/61 (11%)
Query: 178 KNNIDASGERVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL---LGHASCPLCRRD 234
+N I+A + + C +CL+ + + + C H+F C+ K L G + CPLC+ D
Sbjct: 12 QNVINAMQKILECPICLELIKEPVSTK----CDHIFCKFCMLKLLNQKKGPSQCPLCKND 67
Query: 235 L 235
+
Sbjct: 68 I 68
>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 = 30.4 bits (67), Expect = 0.99, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 188 VSCSVCLQDF-QLGETARSL--PHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
VSC +C+ + ++ + R + C H+F C+ L +CP CR+ +
Sbjct: 11 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 4
Length = 69
Score = 29.6 bits (65), Expect = 1.5, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 188 VSCSVCLQDF-QLGETARSL--PHCHHMFHIPCIDKWLLGHASCPLCRRDL 235
VSC +C+ + ++ + R + C H+F C+ L +CP CR+ +
Sbjct: 16 VSCPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 66
>pdb|3ILF|A Chain A, Crystal Structure Of Porphyranase A (Pora) In Complex With
Neo-Porphyrotetraose
Length = 268
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/36 (41%), Positives = 22/36 (61%)
Query: 4 YAYPSRFSMSSLSLCGNFFERVKEFCNFAVSAVIGN 39
Y Y +RF SSLS+ +F+ RV +F + V IG+
Sbjct: 104 YYYEARFMASSLSMTSSFWFRVGQFSSIDVIEHIGD 139
>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 = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 19/42 (45%)
Query: 190 CSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231
C +CL+D + C H+ H C ++ L CPLC
Sbjct: 8 CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC 49
>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 = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 188 VSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWLLGHASCPLC 231
+ C +C + F + A +P C H + CI K+L CP C
Sbjct: 23 LRCGICFEYFNI---AMIIPQCSHNYCSLCIRKFLSYKTQCPTC 63
>pdb|3RPG|C Chain C, Bmi1RING1B-Ubch5c Complex Structure
Length = 121
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 31/74 (41%), Gaps = 8/74 (10%)
Query: 167 VDKIPKITITDKNNIDASGE----RVSCSVCLQDFQLGETARSLPHCHHMFHIPCIDKWL 222
+ + P+ ITD I S + C +CL + T + C H F CI L
Sbjct: 29 LQRTPQEAITDGLEIVVSPRSLHSELMCPICLDMLKNTMTTK---ECLHRFCADCIITAL 85
Query: 223 L-GHASCPLCRRDL 235
G+ CP CR+ L
Sbjct: 86 RSGNKECPTCRKKL 99
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
0.325 0.139 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,394,901
Number of Sequences: 62578
Number of extensions: 232504
Number of successful extensions: 701
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 667
Number of HSP's gapped (non-prelim): 39
length of query: 235
length of database: 14,973,337
effective HSP length: 96
effective length of query: 139
effective length of database: 8,965,849
effective search space: 1246253011
effective search space used: 1246253011
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 50 (23.9 bits)