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= 024762
         (263 letters)

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

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



>pdb|1CF7|B Chain B, Structural Basis Of Dna Recognition By The Heterodimeric
           Cell Cycle Transcription Factor E2f-Dp
          Length = 95

 Score =  134 bits (338), Expect = 4e-32,   Method: Compositional matrix adjust.
 Identities = 64/90 (71%), Positives = 75/90 (83%), Gaps = 2/90 (2%)

Query: 94  DKSGRGLRQFSMKVCEKVESKGRTTYNEVADELVAEFADPSNSLATPDQQQYDEKNIRRR 153
           DK+G+GLR FSMKVCEKV+ KG T+YNEVADELV+EF + +N LA      YD+KNIRRR
Sbjct: 6   DKNGKGLRHFSMKVCEKVQRKGTTSYNEVADELVSEFTNSNNHLAA--DSAYDQKNIRRR 63

Query: 154 VYDALNVLMAMDIISKDKKEIQWKGLPRTS 183
           VYDALNVLMAM+IISK+KKEI+W GLP  S
Sbjct: 64  VYDALNVLMAMNIISKEKKEIKWIGLPTNS 93


>pdb|2AZE|A Chain A, Structure Of The Rb C-Terminal Domain Bound To An E2f1-Dp1
           Heterodimer
          Length = 155

 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/74 (33%), Positives = 40/74 (54%), Gaps = 3/74 (4%)

Query: 186 DIEELKAERLGLRNRIEKKTAYLQELEDQFVGLQNLIQRN---ERLYSSGNAPSGGVALP 242
           + + L+ ER     RI++K + LQEL  Q +  +NL+QRN   E+  S    P+  + LP
Sbjct: 6   ECQNLEVERQRRLERIKQKQSQLQELILQQIAFKNLVQRNRHAEQQASRPPPPNSVIHLP 65

Query: 243 FILVQVDIRQLFSC 256
           FI+V    + +  C
Sbjct: 66  FIIVNTSKKTVIDC 79


>pdb|1CF7|A Chain A, Structural Basis Of Dna Recognition By The Heterodimeric
           Cell Cycle Transcription Factor E2f-Dp
          Length = 76

 Score = 33.5 bits (75), Expect = 0.13,   Method: Compositional matrix adjust.
 Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 1/30 (3%)

Query: 151 RRRVYDALNVLMAMDII-SKDKKEIQWKGL 179
           +RR+YD  NVL  + +I  K K  IQWKG+
Sbjct: 45  KRRIYDITNVLEGIGLIEKKSKNSIQWKGV 74


>pdb|2Q6Q|A Chain A, Crystal Structure Of Spc42p, A Critical Component Of
           Spindle Pole Body In Budding Yeast
 pdb|2Q6Q|B Chain B, Crystal Structure Of Spc42p, A Critical Component Of
           Spindle Pole Body In Budding Yeast
          Length = 74

 Score = 29.6 bits (65), Expect = 1.7,   Method: Compositional matrix adjust.
 Identities = 24/71 (33%), Positives = 36/71 (50%), Gaps = 2/71 (2%)

Query: 172 KEIQWKGLPRTSLNDIEELKAERLGLRNRIEKKTAYLQELEDQFVGLQNLIQRNERLYSS 231
           KE+ +K   R   N+I ELK     LR+++EK     ++LEDQ + LQ  I   E+  S 
Sbjct: 6   KELNFK--LREKQNEIFELKKIAETLRSKLEKYVDITKKLEDQNLNLQIKISDLEKKLSD 63

Query: 232 GNAPSGGVALP 242
            N+    +  P
Sbjct: 64  ANSTFKEMRFP 74


>pdb|3C24|A Chain A, Crystal Structure Of A Putative Oxidoreductase
           (Yp_511008.1) From Jannaschia Sp. Ccs1 At 1.62 A
           Resolution
 pdb|3C24|B Chain B, Crystal Structure Of A Putative Oxidoreductase
           (Yp_511008.1) From Jannaschia Sp. Ccs1 At 1.62 A
           Resolution
          Length = 286

 Score = 27.7 bits (60), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 1/58 (1%)

Query: 150 IRRRVYDALNVLMAMDIISKDKKEIQWKGLPRTSLND-IEELKAERLGLRNRIEKKTA 206
           I R+++D+ + L A++I  + +  +Q  G+P T  +  I+E     L L + I +K A
Sbjct: 27  ITRKIHDSAHHLAAIEIAPEGRDRLQGXGIPLTDGDGWIDEADVVVLALPDNIIEKVA 84


>pdb|1TV5|A Chain A, Plasmodium Falciparum Dihydroorotate Dehydrogenase With A
           Bound Inhibitor
          Length = 443

 Score = 27.3 bits (59), Expect = 9.1,   Method: Compositional matrix adjust.
 Identities = 20/78 (25%), Positives = 39/78 (50%), Gaps = 7/78 (8%)

Query: 182 TSLNDIEELKAERLGLRNRIEKKTAYLQELEDQFVG-LQNLIQRNERLYSSGNAPSGGVA 240
           T +NDI+  + ++ G+        A L+++  +F+  + N   +   + +SG   SG  A
Sbjct: 335 TQINDIKSFENKKGGVSG------AKLKDISTKFICEMYNYTNKQIPIIASGGIFSGLDA 388

Query: 241 LPFILVQVDIRQLFSCIM 258
           L  I     + QL+SC++
Sbjct: 389 LEKIEAGASVCQLYSCLV 406


  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
   0.315    0.132    0.368 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,446,106
Number of Sequences: 62578
Number of extensions: 216122
Number of successful extensions: 354
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 348
Number of HSP's gapped (non-prelim): 10
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)