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= 018827
         (350 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 =  135 bits (339), 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   DKNGKGLRHFSMKVCEKVQRKGTTSYNEVADELVSEFTNSNNHLAAD--SAYDQKNIRRR 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 = 62.4 bits (150), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 39/104 (37%), Positives = 59/104 (56%), Gaps = 4/104 (3%)

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

Query: 243 FILVQTRPHATVEVEISEDMQLVHFDFNSTPFKLHDDNSVLKAM 286
           FI+V T     ++  IS D     F+F++T F++HDD  VLK M
Sbjct: 66  FIIVNTSKKTVIDCSISNDKFEYLFNFDNT-FEIHDDIEVLKRM 108


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

 Score = 32.3 bits (72), Expect = 0.36,   Method: Composition-based stats.
 Identities = 15/30 (50%), Positives = 20/30 (66%), Gaps = 1/30 (3%)

Query: 151 RRRVYDALNVLMAMDIIS-KDKKEIQWKGL 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 = 2.7,   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


  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    0.131    0.370 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,653,240
Number of Sequences: 62578
Number of extensions: 298727
Number of successful extensions: 447
Number of sequences better than 100.0: 6
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 440
Number of HSP's gapped (non-prelim): 6
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)