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= 023268
         (284 letters)

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

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



>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 = 43.1 bits (100), Expect = 2e-04,   Method: Composition-based stats.
 Identities = 18/45 (40%), Positives = 24/45 (53%), Gaps = 2/45 (4%)

Query: 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268
           CPIC   P+   +ALPC H +CY C+      +P+  C  C  PV
Sbjct: 8   CPICLEDPSNYSMALPCLHAFCYVCITRWIRQNPT--CPLCKVPV 50


>pdb|2D8T|A Chain A, Solution Structure Of The Ring Domain Of The Human Ring
           Finger Protein 146
          Length = 71

 Score = 35.0 bits (79), Expect = 0.052,   Method: Composition-based stats.
 Identities = 16/48 (33%), Positives = 27/48 (56%), Gaps = 3/48 (6%)

Query: 221 VTTCPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNEPV 268
           V  C IC  +   P ++LPC+H +CY C++   A+    RC+ C + +
Sbjct: 15  VPECAICLQTCVHP-VSLPCKHVFCYLCVKG--ASWLGKRCALCRQEI 59


>pdb|2ECV|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
           Finger) Domain Of Tripartite Motif-Containing Protein 5
          Length = 85

 Score = 32.0 bits (71), Expect = 0.38,   Method: Composition-based stats.
 Identities = 14/27 (51%), Positives = 16/27 (59%), Gaps = 1/27 (3%)

Query: 223 TCPICQASPTTPFLALPCQHRYCYYCL 249
           TCPIC    T P L+L C H +C  CL
Sbjct: 21  TCPICLELLTQP-LSLDCGHSFCQACL 46


>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
           Anti Beta-Elimination Mechanism Of Pectate Lyase
          Length = 399

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 18/29 (62%)

Query: 133 KAASFGNLLIFLYTGRYRNLIERALRARL 161
           K +  G L I L+  RY+N+++RA R R 
Sbjct: 257 KTSDDGKLKITLHHNRYKNIVQRAPRVRF 285


>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
          Length = 420

 Score = 29.6 bits (65), Expect = 2.0,   Method: Compositional matrix adjust.
 Identities = 12/29 (41%), Positives = 18/29 (62%)

Query: 133 KAASFGNLLIFLYTGRYRNLIERALRARL 161
           K +  G L I L+  RY+N+++RA R R 
Sbjct: 278 KTSDDGKLKITLHHNRYKNIVQRAPRVRF 306


>pdb|3ZTG|A Chain A, Solution Structure Of The Ring Finger-Like Domain Of
           Retinoblastoma Binding Protein-6 (Rbbp6)
 pdb|3ZTG|B Chain B, Solution Structure Of The Ring Finger-Like Domain Of
           Retinoblastoma Binding Protein-6 (Rbbp6)
          Length = 92

 Score = 28.9 bits (63), Expect = 3.0,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 19/43 (44%)

Query: 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266
           C IC+   T   +   C + YC  C+RT    S    C  C++
Sbjct: 16  CLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 58


>pdb|2YUR|A Chain A, Solution Structure Of The Ring Finger Of Human
           Retinoblastoma-Binding Protein 6
          Length = 74

 Score = 28.9 bits (63), Expect = 3.0,   Method: Composition-based stats.
 Identities = 13/43 (30%), Positives = 19/43 (44%)

Query: 224 CPICQASPTTPFLALPCQHRYCYYCLRTRCAASPSFRCSRCNE 266
           C IC+   T   +   C + YC  C+RT    S    C  C++
Sbjct: 18  CLICKDIMTDAVVIPCCGNSYCDECIRTALLESDEHTCPTCHQ 60


>pdb|2ECY|A Chain A, Solution Structure Of The Zinc Finger, C3hc4 Type (Ring
           Finger)" Domain Of Tnf Receptor-Associated Factor 3
          Length = 66

 Score = 28.1 bits (61), Expect = 5.4,   Method: Composition-based stats.
 Identities = 10/30 (33%), Positives = 18/30 (60%), Gaps = 1/30 (3%)

Query: 240 CQHRYCYYCLRTRCAASPSFRCSRCNEPVI 269
           C HR+C  C+    ++S S +C+ C E ++
Sbjct: 33  CGHRFCESCMAALLSSS-SPKCTACQESIV 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
   0.326    0.138    0.444 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,587,881
Number of Sequences: 62578
Number of extensions: 270078
Number of successful extensions: 470
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 465
Number of HSP's gapped (non-prelim): 14
length of query: 284
length of database: 14,973,337
effective HSP length: 98
effective length of query: 186
effective length of database: 8,840,693
effective search space: 1644368898
effective search space used: 1644368898
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: 51 (24.3 bits)