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= 006188
         (657 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 = 43.9 bits (102), Expect = 3e-04,   Method: Composition-based stats.
 Identities = 16/38 (42%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 617 DGEDTGIL-HCGHDFHTSCIKQWLMHKNLCPICKTTAL 653
           DGE+   L  CGH FH  C+  WL   + CP+C+ T +
Sbjct: 17  DGEEARFLPRCGHGFHAECVDMWLGSHSTCPLCRLTVV 54


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

 Score = 43.5 bits (101), Expect = 4e-04,   Method: Composition-based stats.
 Identities = 16/33 (48%), Positives = 20/33 (60%)

Query: 617 DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649
           +GED   L C H FH  C+ QWL+    CPIC+
Sbjct: 26  EGEDVRRLPCMHLFHQVCVDQWLITNKKCPICR 58


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

 Score = 38.1 bits (87), Expect = 0.016,   Method: Composition-based stats.
 Identities = 13/35 (37%), Positives = 20/35 (57%)

Query: 619 EDTGILHCGHDFHTSCIKQWLMHKNLCPICKTTAL 653
           ++ GI  C H FH  C+ +WL  + +CP+C    L
Sbjct: 29  DELGICPCKHAFHRKCLIKWLEVRKVCPLCNMPVL 63


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

 Score = 37.7 bits (86), Expect = 0.023,   Method: Compositional matrix adjust.
 Identities = 12/28 (42%), Positives = 17/28 (60%)

Query: 623 ILHCGHDFHTSCIKQWLMHKNLCPICKT 650
           +L C H+FH  C+ +WL     CPIC+ 
Sbjct: 41  VLPCNHEFHAKCVDKWLKANRTCPICRA 68


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

 Score = 37.4 bits (85), Expect = 0.029,   Method: Composition-based stats.
 Identities = 13/36 (36%), Positives = 19/36 (52%), Gaps = 2/36 (5%)

Query: 616 NDGEDTGIL--HCGHDFHTSCIKQWLMHKNLCPICK 649
           N  ED  ++   C H FH  C+  W+   N CP+C+
Sbjct: 36  NKQEDCVVVWGECNHSFHNCCMSLWVKQNNRCPLCQ 71


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

 Score = 37.4 bits (85), Expect = 0.030,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 17/26 (65%)

Query: 624 LHCGHDFHTSCIKQWLMHKNLCPICK 649
           L+C H F + CI +W+  K  CPIC+
Sbjct: 69  LNCAHSFCSYCINEWMKRKIECPICR 94


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

 Score = 37.4 bits (85), Expect = 0.030,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 17/26 (65%)

Query: 624 LHCGHDFHTSCIKQWLMHKNLCPICK 649
           L+C H F + CI +W+  K  CPIC+
Sbjct: 69  LNCAHSFCSYCINEWMKRKIECPICR 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 = 37.4 bits (85), Expect = 0.030,   Method: Composition-based stats.
 Identities = 12/26 (46%), Positives = 17/26 (65%)

Query: 624 LHCGHDFHTSCIKQWLMHKNLCPICK 649
           L+C H F + CI +W+  K  CPIC+
Sbjct: 80  LNCAHSFCSYCINEWMKRKIECPICR 105


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

 Score = 36.6 bits (83), Expect = 0.042,   Method: Compositional matrix adjust.
 Identities = 16/35 (45%), Positives = 19/35 (54%)

Query: 615 YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649
           Y  GE    L C H FH SCI  WL   + CP+C+
Sbjct: 25  YALGESVRQLPCNHLFHDSCIVPWLEQHDSCPVCR 59


>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 = 34.7 bits (78), Expect = 0.17,   Method: Composition-based stats.
 Identities = 13/35 (37%), Positives = 17/35 (48%)

Query: 615 YNDGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649
           Y  G+    L C H FH  C+  WL     CP+C+
Sbjct: 50  YVKGDVATELPCHHYFHKPCVSIWLQKSGTCPVCR 84


>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 = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 75  CNHAFHFHCISRWLKTRQVCPL 96


>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 = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 57  CNHAFHFHCISRWLKTRQVCPL 78


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

 Score = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 67  CNHAFHFHCISRWLKTRQVCPL 88


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

 Score = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 84  CNHAFHFHCISRWLKTRQVCPL 105


>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 = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 65  CNHAFHFHCISRWLKTRQVCPL 86


>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 = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
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 = 33.9 bits (76), Expect = 0.30,   Method: Composition-based stats.
 Identities = 10/22 (45%), Positives = 14/22 (63%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPI 647
           C H FH  CI +WL  + +CP+
Sbjct: 73  CNHAFHFHCISRWLKTRQVCPL 94


>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 = 32.3 bits (72), Expect = 0.82,   Method: Composition-based stats.
 Identities = 11/29 (37%), Positives = 18/29 (62%)

Query: 623 ILHCGHDFHTSCIKQWLMHKNLCPICKTT 651
           I  C H++ + CI+++L +K  CP C  T
Sbjct: 38  IPQCSHNYCSLCIRKFLSYKTQCPTCCVT 66


>pdb|3RPG|B Chain B, Bmi1RING1B-Ubch5c Complex Structure
          Length = 117

 Score = 32.0 bits (71), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 621 TGILHCGHDFHTSCIKQWLMHKNLCPIC 648
           T I+ C H F  +CI ++L     CPIC
Sbjct: 29  TTIIECLHSFCKTCIVRYLETSKYCPIC 56


>pdb|2CKL|A Chain A, Ring1b-Bmi1 E3 Catalytic Domain Structure
          Length = 108

 Score = 32.0 bits (71), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 621 TGILHCGHDFHTSCIKQWLMHKNLCPIC 648
           T I+ C H F  +CI ++L     CPIC
Sbjct: 29  TTIIECLHSFCKTCIVRYLETSKYCPIC 56


>pdb|2H0D|A Chain A, Structure Of A Bmi-1-Ring1b Polycomb Group Ubiquitin
           Ligase Complex
          Length = 97

 Score = 32.0 bits (71), Expect = 1.1,   Method: Composition-based stats.
 Identities = 12/28 (42%), Positives = 16/28 (57%)

Query: 621 TGILHCGHDFHTSCIKQWLMHKNLCPIC 648
           T I+ C H F  +CI ++L     CPIC
Sbjct: 25  TTIIECLHSFCKTCIVRYLETSKYCPIC 52


>pdb|2ECJ|A Chain A, Solution Structure Of The Ring Domain Of The Human
           Tripartite Motif-Containing Protein 39
          Length = 58

 Score = 31.6 bits (70), Expect = 1.3,   Method: Composition-based stats.
 Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 3/29 (10%)

Query: 623 ILHCGHDFHTSCIKQW---LMHKNLCPIC 648
           I+ CGH+F  +CI +W   L     CP+C
Sbjct: 30  IIECGHNFCKACITRWWEDLERDFPCPVC 58


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

 Score = 31.6 bits (70), Expect = 1.4,   Method: Composition-based stats.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPICK 649
           CGH F + C++  L + N CP C+
Sbjct: 28  CGHVFCSQCLRDSLKNANTCPTCR 51


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

 Score = 31.2 bits (69), Expect = 1.7,   Method: Composition-based stats.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPICK 649
           CGH F + C++  L + N CP C+
Sbjct: 32  CGHVFCSQCLRDSLKNANTCPTCR 55



 Score = 31.2 bits (69), Expect = 1.7,   Method: Composition-based stats.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPICK 649
           CGH F + C++  L + N CP C+
Sbjct: 97  CGHVFCSQCLRDSLKNANTCPTCR 120


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

 Score = 31.2 bits (69), Expect = 2.1,   Method: Compositional matrix adjust.
 Identities = 14/33 (42%), Positives = 16/33 (48%)

Query: 617 DGEDTGILHCGHDFHTSCIKQWLMHKNLCPICK 649
           DG    IL C H F   CI +W      CPIC+
Sbjct: 23  DGRADLILPCAHSFCQKCIDKWSDRHRNCPICR 55


>pdb|2EA6|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
           Finger Protein 4
          Length = 69

 Score = 30.8 bits (68), Expect = 2.3,   Method: Composition-based stats.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPICK 649
           CGH F + C++  L + N CP C+
Sbjct: 40  CGHVFCSQCLRDSLKNANTCPTCR 63


>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 = 30.8 bits (68), Expect = 2.4,   Method: Composition-based stats.
 Identities = 10/24 (41%), Positives = 15/24 (62%)

Query: 626 CGHDFHTSCIKQWLMHKNLCPICK 649
           CGH F + C++  L + N CP C+
Sbjct: 35  CGHVFCSQCLRDSLKNANTCPTCR 58


>pdb|4A4B|A Chain A, Structure Of Modified Phosphotyr371-C-Cbl-Ubch5b-Zap-70
           Complex
          Length = 391

 Score = 30.8 bits (68), Expect = 2.8,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 579 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 638
           TGL E T ++ +K  +    L                ND +D  I  CGH   TSC+  W
Sbjct: 306 TGLCEPTPQDHIKVTQEQFELXCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 364

Query: 639 LMHKNL-CPICKT 650
              +   CP C+ 
Sbjct: 365 QESEGQGCPFCRC 377


>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 = 30.4 bits (67), Expect = 3.0,   Method: Composition-based stats.
 Identities = 11/26 (42%), Positives = 14/26 (53%)

Query: 624 LHCGHDFHTSCIKQWLMHKNLCPICK 649
           L C H F   CI +W+     CP+CK
Sbjct: 22  LPCLHAFCYVCITRWIRQNPTCPLCK 47


>pdb|4A4C|A Chain A, Structure Of Phosphotyr371-C-Cbl-Ubch5b-Zap-70 Complex
          Length = 391

 Score = 30.0 bits (66), Expect = 4.4,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 579 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 638
           TGL E T ++ +K  +    L                ND +D  I  CGH   TSC+  W
Sbjct: 306 TGLCEPTPQDHIKVTQEQYELXCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 364

Query: 639 LMHKNL-CPICKT 650
              +   CP C+ 
Sbjct: 365 QESEGQGCPFCRC 377


>pdb|2Y1M|A Chain A, Structure Of Native C-Cbl
 pdb|2Y1M|B Chain B, Structure Of Native C-Cbl
 pdb|2Y1M|C Chain C, Structure Of Native C-Cbl
 pdb|2Y1M|D Chain D, Structure Of Native C-Cbl
 pdb|2Y1M|E Chain E, Structure Of Native C-Cbl
 pdb|2Y1M|F Chain F, Structure Of Native C-Cbl
 pdb|2Y1N|A Chain A, Structure Of C-Cbl-Zap-70 Peptide Complex
 pdb|2Y1N|C Chain C, Structure Of C-Cbl-Zap-70 Peptide Complex
          Length = 389

 Score = 29.6 bits (65), Expect = 6.1,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 579 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 638
           TGL E T ++ +K  +    L                ND +D  I  CGH   TSC+  W
Sbjct: 304 TGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 362

Query: 639 LMHKNL-CPICKT 650
              +   CP C+ 
Sbjct: 363 QESEGQGCPFCRC 375


>pdb|1FBV|A Chain A, Structure Of A Cbl-Ubch7 Complex: Ring Domain Function In
           Ubiquitin-Protein Ligases
          Length = 388

 Score = 29.3 bits (64), Expect = 6.4,   Method: Compositional matrix adjust.
 Identities = 21/73 (28%), Positives = 29/73 (39%), Gaps = 2/73 (2%)

Query: 579 TGLTEETIKNRLKQQKYSISLGSXXXXXXXXXXXXXYNDGEDTGILHCGHDFHTSCIKQW 638
           TGL E T ++ +K  +    L                ND +D  I  CGH   TSC+  W
Sbjct: 304 TGLCEPTPQDHIKVTQEQYELYCEMGSTFQLCKICAEND-KDVKIEPCGHLMCTSCLTSW 362

Query: 639 LMHKNL-CPICKT 650
              +   CP C+ 
Sbjct: 363 QESEGQGCPFCRC 375


  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
   0.314    0.130    0.391 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,870,893
Number of Sequences: 62578
Number of extensions: 659176
Number of successful extensions: 946
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 37
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 908
Number of HSP's gapped (non-prelim): 44
length of query: 657
length of database: 14,973,337
effective HSP length: 105
effective length of query: 552
effective length of database: 8,402,647
effective search space: 4638261144
effective search space used: 4638261144
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 55 (25.8 bits)