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= 017405
(372 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
Length = 69
Score = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 22/46 (47%), Positives = 33/46 (71%)
Query: 315 ECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
+C ICLS ++G ++R LPC+H FH C+D+WL N CP+C+ +I
Sbjct: 16 KCTICLSILEEGEDVRRLPCMHLFHQVCVDQWLITNKKCPICRVDI 61
>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
Length = 55
Score = 55.8 bits (133), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 25/52 (48%), Positives = 34/52 (65%), Gaps = 1/52 (1%)
Query: 311 EDDAECCICLSAYDDGTELRELP-CLHHFHCSCLDKWLYINSTCPLCKFNIL 361
+D EC +CL+ +DG E R LP C H FH C+D WL +STCPLC+ ++
Sbjct: 3 DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54
>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
38
Length = 75
Score = 55.1 bits (131), Expect = 6e-08, Method: Composition-based stats.
Identities = 20/42 (47%), Positives = 27/42 (64%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
C +C+ ++ LR LPC H FH C+DKWL N TCP+C+
Sbjct: 26 CVVCMCDFESRQLLRVLPCNHEFHAKCVDKWLKANRTCPICR 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 = 49.3 bits (116), Expect = 3e-06, Method: Composition-based stats.
Identities = 23/52 (44%), Positives = 31/52 (59%), Gaps = 2/52 (3%)
Query: 306 EHVISEDDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
EHV S EC +C Y G +R+LPC H FH SC+ WL + +CP+C+
Sbjct: 10 EHVGS--GLECPVCKEDYALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59
>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
Protein 24
Length = 74
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/53 (39%), Positives = 28/53 (52%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
C +CL + EL PC H FH CL KWL + CPLC +L+++ G
Sbjct: 18 CAVCLEDFKPRDELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVLQLAQLSG 70
>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
Finger Protein 141
Length = 70
Score = 45.8 bits (107), Expect = 4e-05, Method: Composition-based stats.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 312 DDAECCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILKMSNERG 368
D+ ECCIC+ DG LPC H F C+DKW + CP+C+ + + G
Sbjct: 14 DEEECCICM----DGRADLILPCAHSFCQKCIDKWSDRHRNCPICRLQMTGANESSG 66
>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 = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 25/42 (59%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCK 357
C IC S Y G ELPC H+FH C+ WL + TCP+C+
Sbjct: 43 CPICCSEYVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84
>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 = 0.006, Method: Compositional matrix adjust.
Identities = 20/45 (44%), Positives = 24/45 (53%), Gaps = 2/45 (4%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
C ICL D LPCLH F C+ +W+ N TCPLCK +
Sbjct: 8 CPICLE--DPSNYSMALPCLHAFCYVCITRWIRQNPTCPLCKVPV 50
>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
Length = 117
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
C +C + D T + E CLH F +C+ ++L + CP+C + K
Sbjct: 18 CVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
Length = 108
Score = 33.9 bits (76), Expect = 0.15, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
C +C + D T + E CLH F +C+ ++L + CP+C + K
Sbjct: 18 CVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHK 62
>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
Ligase Complex
Length = 97
Score = 33.5 bits (75), Expect = 0.21, Method: Composition-based stats.
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 2/47 (4%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNILK 362
C +C + D T + E CLH F +C+ ++L + CP+C + K
Sbjct: 14 CVLCGGYFIDATTIIE--CLHSFCKTCIVRYLETSKYCPICDVQVHK 58
>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 = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 265 EEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYD 324
EE++R K + I K + +E + + + + + + E++ +C IC +
Sbjct: 16 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI 75
Query: 325 DGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
+ L C H F C+++W+ CP+C+ +I
Sbjct: 76 EAVTLN---CAHSFCSYCINEWMKRKIECPICRKDI 108
>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
Length = 138
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 265 EEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYD 324
EE++R K + I K + +E + + + + + + E++ +C IC +
Sbjct: 5 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI 64
Query: 325 DGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
+ L C H F C+++W+ CP+C+ +I
Sbjct: 65 EAVTL---NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
Length = 138
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 21/96 (21%), Positives = 44/96 (45%), Gaps = 3/96 (3%)
Query: 265 EEIDRLPKFKFSRIDGLEKVNGEIQEPFGGIMIECDTDMPMEHVISEDDAECCICLSAYD 324
EE++R K + I K + +E + + + + + + E++ +C IC +
Sbjct: 5 EELNRSKKDFEAIIQAKNKELEQTKEEKEKMQAQKEEVLSHMNDVLENELQCIICSEYFI 64
Query: 325 DGTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
+ L C H F C+++W+ CP+C+ +I
Sbjct: 65 EAVTL---NCAHSFCSYCINEWMKRKIECPICRKDI 97
>pdb|2DJB|A Chain A, Solution Structure Of The Ring Domain Of The Human
Polycomb Group Ring Finger Protein 6
Length = 72
Score = 31.6 bits (70), Expect = 0.82, Method: Composition-based stats.
Identities = 16/41 (39%), Positives = 21/41 (51%), Gaps = 2/41 (4%)
Query: 316 CCICLSAYDDGTELRELPCLHHFHCSCLDKWLYINSTCPLC 356
C IC D T + E CLH F SC+ + Y ++ CP C
Sbjct: 18 CSICKGYLIDATTITE--CLHTFCKSCIVRHFYYSNRCPKC 56
>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 = 1.4, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 334 CLHHFHCSCLDKWLYINSTCPLCK 357
C H FH C+ W+ N+ CPLC+
Sbjct: 48 CNHSFHNCCMSLWVKQNNRCPLCQ 71
>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
Site Containing Dna-Duplex
Length = 117
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 84 CNHAFHFHCISRWLKTRQVCPL 105
>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 = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>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 = 30.0 bits (66), Expect = 2.3, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 73 CNHAFHFHCISRWLKTRQVCPL 94
>pdb|2H9A|A Chain A, Corrinoid Iron-Sulfur Protein
pdb|2YCL|A Chain A, Complete Structure Of The Corrinoid,Iron-Sulfur Protein
Including The N-Terminal Domain With A 4fe-4s Cluster
Length = 445
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 21/39 (53%)
Query: 247 PCILGILYALTEREGATEEEIDRLPKFKFSRIDGLEKVN 285
PC L IL T EG +E ++++ K F R+ + VN
Sbjct: 91 PCGLAILVEDTLSEGEIKERVEKINKLVFDRVGQMHSVN 129
>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 = 30.0 bits (66), Expect = 2.4, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 75 CNHAFHFHCISRWLKTRQVCPL 96
>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 = 29.6 bits (65), Expect = 2.7, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 65 CNHAFHFHCISRWLKTRQVCPL 86
>pdb|2LGV|A Chain A, Rbx1
Length = 100
Score = 29.6 bits (65), Expect = 3.0, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 67 CNHAFHFHCISRWLKTRQVCPL 88
>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 = 29.3 bits (64), Expect = 3.8, Method: Composition-based stats.
Identities = 10/22 (45%), Positives = 12/22 (54%)
Query: 334 CLHHFHCSCLDKWLYINSTCPL 355
C H FH C+ +WL CPL
Sbjct: 57 CNHAFHFHCISRWLKTRQVCPL 78
>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 = 28.1 bits (61), Expect = 9.0, Method: Composition-based stats.
Identities = 16/49 (32%), Positives = 21/49 (42%), Gaps = 4/49 (8%)
Query: 316 CCICLSAYDD----GTELRELPCLHHFHCSCLDKWLYINSTCPLCKFNI 360
C IC+ Y + G + C H F CL L +TCP C+ I
Sbjct: 13 CPICMDGYSEIVQNGRLIVSTECGHVFCSQCLRDSLKNANTCPTCRKKI 61
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
0.327 0.141 0.460
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,512,738
Number of Sequences: 62578
Number of extensions: 346690
Number of successful extensions: 684
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 655
Number of HSP's gapped (non-prelim): 34
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)