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= 035703
         (139 letters)

Database: pdbaa 
           62,578 sequences; 14,973,337 total letters

Searching..................................................done



>pdb|1X4J|A Chain A, Solution Structure Of Ring Finger In Ring Finger Protein
           38
          Length = 75

 Score = 55.1 bits (131), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 22/53 (41%), Positives = 37/53 (69%), Gaps = 1/53 (1%)

Query: 70  NARTNDYGPCSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRS 122
           N   ++   C +C+CD++ +  +R +P C+H FHA CVD+WL+ + TCP+CR+
Sbjct: 17  NNHQSEQTLCVVCMCDFESRQLLRVLP-CNHEFHAKCVDKWLKANRTCPICRA 68


>pdb|1IYM|A Chain A, Ring-H2 Finger Domain Of El5
          Length = 55

 Score = 52.8 bits (125), Expect = 6e-08,   Method: Compositional matrix adjust.
 Identities = 22/48 (45%), Positives = 31/48 (64%)

Query: 74  NDYGPCSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCR 121
           +D   C++CL + +  +  R +P C H FHA+CVD WL   +TCPLCR
Sbjct: 3   DDGVECAVCLAELEDGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCR 50


>pdb|2EP4|A Chain A, Solution Structure Of Ring Finger From Human Ring Finger
           Protein 24
          Length = 74

 Score = 48.5 bits (114), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 2/67 (2%)

Query: 65  GREYENARTNDYGPCSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRSSP 124
           G   +    N +  C++CL D+KP+D +   P C H FH  C+ +WL +   CPLC + P
Sbjct: 4   GSSGKVKELNLHELCAVCLEDFKPRDELGICP-CKHAFHRKCLIKWLEVRKVCPLC-NMP 61

Query: 125 ATPLAEV 131
              LA++
Sbjct: 62  VLQLAQL 68


>pdb|2ECT|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
           Finger) Domain Of Ring Finger Protein 126
          Length = 78

 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 20/45 (44%), Positives = 27/45 (60%), Gaps = 1/45 (2%)

Query: 79  CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRSS 123
           C +C  DY   +SVR +P C+H FH  C+  WL    +CP+CR S
Sbjct: 18  CPVCKEDYALGESVRQLP-CNHLFHDSCIVPWLEQHDSCPVCRKS 61


>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 26/62 (41%), Positives = 31/62 (50%), Gaps = 7/62 (11%)

Query: 73  TNDYGP------CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRSSPAT 126
           T D+G       C IC  +Y   D    +P CHH FH  CV  WL+ S TCP+CR     
Sbjct: 31  TEDHGAVGQEMCCPICCSEYVKGDVATELP-CHHYFHKPCVSIWLQKSGTCPVCRCMFPP 89

Query: 127 PL 128
           PL
Sbjct: 90  PL 91


>pdb|2KIZ|A Chain A, Solution Structure Of Arkadia Ring-H2 Finger Domain
          Length = 69

 Score = 43.1 bits (100), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 20/43 (46%), Positives = 27/43 (62%), Gaps = 1/43 (2%)

Query: 79  CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCR 121
           C+ICL   +  + VR +P C H FH  CVD+WL  +  CP+CR
Sbjct: 17  CTICLSILEEGEDVRRLP-CMHLFHQVCVDQWLITNKKCPICR 58


>pdb|4AYC|B Chain B, Rnf8 Ring Domain Structure
          Length = 138

 Score = 32.7 bits (73), Expect = 0.066,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCRSSPATP 127
           +C H F + C++EW++    CP+CR    + 
Sbjct: 70  NCAHSFCSYCINEWMKRKIECPICRKDIKSK 100


>pdb|4AYC|A Chain A, Rnf8 Ring Domain Structure
          Length = 138

 Score = 32.7 bits (73), Expect = 0.068,   Method: Compositional matrix adjust.
 Identities = 10/31 (32%), Positives = 18/31 (58%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCRSSPATP 127
           +C H F + C++EW++    CP+CR    + 
Sbjct: 70  NCAHSFCSYCINEWMKRKIECPICRKDIKSK 100


>pdb|2ECL|A Chain A, Solution Structure Of The Ring Domain Of The Human
           Ring-Box Protein 2
          Length = 81

 Score = 32.7 bits (73), Expect = 0.076,   Method: Compositional matrix adjust.
 Identities = 16/51 (31%), Positives = 25/51 (49%)

Query: 72  RTNDYGPCSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRS 122
           R      C  C  + K +D V    +C+H FH  C+  W++ +  CPLC+ 
Sbjct: 22  RVQVMDACLRCQAENKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQQ 72


>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 = 0.089,   Method: Compositional matrix adjust.
 Identities = 10/26 (38%), Positives = 17/26 (65%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCRS 122
           +C H F + C++EW++    CP+CR 
Sbjct: 81  NCAHSFCSYCINEWMKRKIECPICRK 106


>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 = 32.3 bits (72), Expect = 0.095,   Method: Compositional matrix adjust.
 Identities = 18/43 (41%), Positives = 24/43 (55%), Gaps = 3/43 (6%)

Query: 79  CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCR 121
           C ICL D  P +    +P C H F   C+  W+R + TCPLC+
Sbjct: 8   CPICLED--PSNYSMALP-CLHAFCYVCITRWIRQNPTCPLCK 47


>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 = 30.8 bits (68), Expect = 0.24,   Method: Compositional matrix adjust.
 Identities = 18/48 (37%), Positives = 23/48 (47%), Gaps = 1/48 (2%)

Query: 79  CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRSSPAT 126
           C ICL D      V  +  C H  H  C +E L+    CPLC S P++
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLC-SGPSS 54


>pdb|2JRJ|A Chain A, Solution Structure Of The Human Pirh2 Ring-H2 Domain.
           Northeast Structural Genomics Consortium Target Ht2b
          Length = 52

 Score = 30.8 bits (68), Expect = 0.28,   Method: Compositional matrix adjust.
 Identities = 17/45 (37%), Positives = 20/45 (44%)

Query: 79  CSICLCDYKPKDSVRCIPDCHHCFHADCVDEWLRMSATCPLCRSS 123
           C ICL D      V  +  C H  H  C +E L+    CPLC  S
Sbjct: 8   CPICLEDIHTSRVVAHVLPCGHLLHRTCYEEMLKEGYRCPLCMHS 52


>pdb|4A0K|B Chain B, Structure Of Ddb1-Ddb2-Cul4a-Rbx1 Bound To A 12 Bp Abasic
           Site Containing Dna-Duplex
          Length = 117

 Score = 30.4 bits (67), Expect = 0.34,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           C+H FH  C+  WL+    CPL
Sbjct: 84  CNHAFHFHCISRWLKTRQVCPL 105


>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 = 0.39,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           C+H FH  C+  WL+    CPL
Sbjct: 75  CNHAFHFHCISRWLKTRQVCPL 96


>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 = 0.40,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           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 = 0.40,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           C+H FH  C+  WL+    CPL
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 = 30.0 bits (66), Expect = 0.41,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           C+H FH  C+  WL+    CPL
Sbjct: 65  CNHAFHFHCISRWLKTRQVCPL 86


>pdb|2LGV|A Chain A, Rbx1
          Length = 100

 Score = 30.0 bits (66), Expect = 0.42,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           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 = 29.6 bits (65), Expect = 0.53,   Method: Compositional matrix adjust.
 Identities = 10/22 (45%), Positives = 13/22 (59%)

Query: 98  CHHCFHADCVDEWLRMSATCPL 119
           C+H FH  C+  WL+    CPL
Sbjct: 57  CNHAFHFHCISRWLKTRQVCPL 78


>pdb|2ECN|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
           Finger Protein 141
          Length = 70

 Score = 27.7 bits (60), Expect = 2.3,   Method: Compositional matrix adjust.
 Identities = 10/24 (41%), Positives = 13/24 (54%)

Query: 98  CHHCFHADCVDEWLRMSATCPLCR 121
           C H F   C+D+W      CP+CR
Sbjct: 32  CAHSFCQKCIDKWSDRHRNCPICR 55


>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 = 3.3,   Method: Compositional matrix adjust.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCRSS 123
           +C H F + C+ + L+ + TCP CR  
Sbjct: 34  ECGHVFCSQCLRDSLKNANTCPTCRKK 60


>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 = 4.0,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 16/25 (64%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCR 121
           +C H F + C+ + L+ + TCP CR
Sbjct: 39  ECGHVFCSQCLRDSLKNANTCPTCR 63


>pdb|4AP4|A Chain A, Rnf4 - Ubch5a - Ubiquitin Heterotrimeric Complex
          Length = 133

 Score = 26.9 bits (58), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 16/25 (64%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCR 121
           +C H F + C+ + L+ + TCP CR
Sbjct: 31  ECGHVFCSQCLRDSLKNANTCPTCR 55



 Score = 26.9 bits (58), Expect = 4.1,   Method: Compositional matrix adjust.
 Identities = 10/25 (40%), Positives = 16/25 (64%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCR 121
           +C H F + C+ + L+ + TCP CR
Sbjct: 96  ECGHVFCSQCLRDSLKNANTCPTCR 120


>pdb|2XEU|A Chain A, Ring Domain
          Length = 64

 Score = 26.6 bits (57), Expect = 4.5,   Method: Compositional matrix adjust.
 Identities = 10/27 (37%), Positives = 16/27 (59%)

Query: 97  DCHHCFHADCVDEWLRMSATCPLCRSS 123
           +C H F + C+ + L+ + TCP CR  
Sbjct: 27  ECGHVFCSQCLRDSLKNANTCPTCRKK 53


  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    0.136    0.451 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,413,595
Number of Sequences: 62578
Number of extensions: 112571
Number of successful extensions: 265
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 229
Number of HSP's gapped (non-prelim): 42
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)