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= 035915
         (344 letters)

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

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



>pdb|1VJR|A Chain A, Crystal Structure Of 4-nitrophenylphosphatase (tm1742)
           From Thermotoga Maritima At 2.40 A Resolution
          Length = 271

 Score = 29.6 bits (65), Expect = 2.4,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 303 HRPDFVLCNLDNTQNAQPSKITCLLIRKKSFDTST 337
             PDFV+   D T   +  K  C+L+RK  F  +T
Sbjct: 124 ENPDFVVLGFDKTLTYERLKKACILLRKGKFYIAT 158


>pdb|1PW5|A Chain A, Putative Nagd Protein
          Length = 253

 Score = 29.6 bits (65), Expect = 2.5,   Method: Compositional matrix adjust.
 Identities = 13/35 (37%), Positives = 18/35 (51%)

Query: 303 HRPDFVLCNLDNTQNAQPSKITCLLIRKKSFDTST 337
             PDFV+   D T   +  K  C+L+RK  F  +T
Sbjct: 112 ENPDFVVLGFDKTLTYERLKKACILLRKGKFYIAT 146


>pdb|3PD7|A Chain A, Crystal Structure Of The Sixth Brct Domain Of Human Topbp1
 pdb|3PD7|B Chain B, Crystal Structure Of The Sixth Brct Domain Of Human Topbp1
          Length = 107

 Score = 29.6 bits (65), Expect = 2.7,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 34/75 (45%), Gaps = 17/75 (22%)

Query: 198 FRGNFYMTII-----GEELDYVREFASFKESKVILAPEAWLDLRIKGSQLSQYFRRKCKH 252
           +R +F  T+      G   D  RE+ S KE  V +  E WL   +  +Q       +CKH
Sbjct: 45  YRRSFDETVTHFIYQGRPNDTNREYKSVKERGVHIVSEHWL---LDCAQ-------ECKH 94

Query: 253 TPKGLFSYPADINGT 267
            P+ L  YP   NG+
Sbjct: 95  LPESL--YPHTYNGS 107


>pdb|3GBZ|A Chain A, Structure Of The Cmgc Cdk Kinase From Giardia Lamblia
 pdb|3GC0|A Chain A, Structure Of The Cmgc Cdk Kinase From Giardia Lamblia In
           Complex With Amp
          Length = 329

 Score = 28.5 bits (62), Expect = 5.2,   Method: Compositional matrix adjust.
 Identities = 21/70 (30%), Positives = 32/70 (45%), Gaps = 13/70 (18%)

Query: 141 DILTKKSSFPGSFISIPEIQARNKVLKHCGLPDDEYL--VLFTPNYRDAMMLVGESYPFF 198
           ++L K   FPG      EI    K+ +  GLPDD     V   P+++       +S+P F
Sbjct: 230 EMLMKTPLFPGD----SEIDQLFKIFEVLGLPDDTTWPGVTALPDWK-------QSFPKF 278

Query: 199 RGNFYMTIIG 208
           RG     ++G
Sbjct: 279 RGKTLKRVLG 288


>pdb|3SHW|A Chain A, Crystal Structure Of Zo-1 Pdz3-Sh3-Guk Supramodule Complex
           With Connexin-45 Peptide
          Length = 468

 Score = 28.1 bits (61), Expect = 7.1,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 271 MHWISEAHRNSWHVLLDATALVVGEDRLNLALHRPDFVLCNLDNTQNAQPSKI 323
           +H I +      H LLD T   V  DRLN A   P  V  N D+ Q  +  ++
Sbjct: 271 LHTIKQIIDQDKHALLDVTPNAV--DRLNYAQWYPIVVFLNPDSKQGVKTMRM 321


>pdb|3TSW|A Chain A, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
           Zo-1
 pdb|3TSW|C Chain C, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
           Zo-1
 pdb|3TSW|D Chain D, Crystal Structure Of The Pdz3-Sh3-Guk Core Module Of Human
           Zo-1
 pdb|3TSZ|A Chain A, Crystal Structure Of Pdz3-Sh3-Guk Core Module From Human
           Zo-1 In Complex With 12mer Peptide From Human Jam-A
           Cytoplasmic Tail
          Length = 391

 Score = 27.7 bits (60), Expect = 9.9,   Method: Compositional matrix adjust.
 Identities = 18/53 (33%), Positives = 24/53 (45%), Gaps = 2/53 (3%)

Query: 271 MHWISEAHRNSWHVLLDATALVVGEDRLNLALHRPDFVLCNLDNTQNAQPSKI 323
           +H I +      H LLD T   V  DRLN A   P  V  N D+ Q  +  ++
Sbjct: 279 LHTIKQIIDQDKHALLDVTPNAV--DRLNYAQWYPIVVFLNPDSKQGVKTMRM 329


  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
   0.317    0.134    0.401 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,037,844
Number of Sequences: 62578
Number of extensions: 475914
Number of successful extensions: 874
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 871
Number of HSP's gapped (non-prelim): 9
length of query: 344
length of database: 14,973,337
effective HSP length: 100
effective length of query: 244
effective length of database: 8,715,537
effective search space: 2126591028
effective search space used: 2126591028
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)