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= 018338
         (357 letters)

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

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



>pdb|1WKC|A Chain A, Crystal Structure Of A 5-Formyltetrahydrofolate
           Cycloligase-Related Protein From Thermus Thermophilus
           Hb8
          Length = 184

 Score = 32.0 bits (71), Expect = 0.51,   Method: Compositional matrix adjust.
 Identities = 27/92 (29%), Positives = 43/92 (46%), Gaps = 12/92 (13%)

Query: 219 VDLIVIGSVAVNPKTGARLGKGEGFAELEYGMLRYMGAIDDSTPVVTSVHDYQLVDDIPV 278
           +DL+V+  +A + + G RLG G+GF +      R++  +  +T  V  V    L   +P 
Sbjct: 103 LDLVVVPGLAFD-REGYRLGHGQGFYD------RFLKEVRAAT--VGVVPQALLFPALPR 153

Query: 279 EKLLIHDVPVDIICTPTQVIFTNTTIPKPQGI 310
           +     DVPVD + T   V       P P G+
Sbjct: 154 DPW---DVPVDHLATEAGVEAVKRPAPGPGGL 182


>pdb|2A03|A Chain A, Superoxide Dismutase Protein From Plasmodium Berghei
 pdb|2A03|B Chain B, Superoxide Dismutase Protein From Plasmodium Berghei
          Length = 206

 Score = 30.8 bits (68), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 22/69 (31%), Positives = 31/69 (44%), Gaps = 10/69 (14%)

Query: 278 VEKL--LIHDVPV------DIICTPTQVIFTNTTIPKPQGIYWDKLSPEKLGQIRILREL 329
           V KL  LI D P+      DI+   T  IF N         YWD + P   G+     E+
Sbjct: 44  VNKLNGLIKDTPLANKSLTDILKESTGAIFNNAAQIWNHSFYWDSMGPNCGGEPH--GEI 101

Query: 330 KGRIEQETG 338
           K +I+++ G
Sbjct: 102 KEKIQEDFG 110


>pdb|1FXX|A Chain A, The Structure Of Exonuclease I Suggests How Processivity
           Is Achieved
 pdb|2QXF|A Chain A, Product Bound Structure Of Exonuclease I At 1.5 Angstrom
           Resolution
 pdb|3C94|A Chain A, ExoiSSB-Ct Complex
 pdb|3C95|A Chain A, Exonuclease I (Apo)
 pdb|3HL8|A Chain A, Crystal Structure Of Exonuclease I In Complex With
           Inhibitor Bcbp
 pdb|3HP9|A Chain A, Crystal Structure Of SsbEXONUCLEASE I IN COMPLEX WITH
           INHIBITOR CFAM
          Length = 482

 Score = 29.3 bits (64), Expect = 3.5,   Method: Compositional matrix adjust.
 Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 9/61 (14%)

Query: 91  DPKSWKWIIRKRIWDLMEVQNIAQNPRPVHHRIPNFVGASVAAKNLTGLEEFRVAGCVKV 150
           DP +W W      WDL++V       RP     P         +N  GL  FR+    K 
Sbjct: 122 DPYAWSWQHDNSRWDLLDVMRACYALRPEGINWP---------ENDDGLPSFRLEHLTKA 172

Query: 151 N 151
           N
Sbjct: 173 N 173


>pdb|4B9J|A Chain A, Structure Of Self-Complemented Cssa Subunit Of
           Enterotoxigenic Escherichia Coli Colonization Factor Cs6
          Length = 150

 Score = 28.1 bits (61), Expect = 7.6,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 15/75 (20%)

Query: 247 EYGMLRYMGAIDDSTPVVTSVHDYQLVDDIPVEKLLIHDVPVDIICTPTQVI------FT 300
           +YG+ R +   DDS  ++     YQ+VDD   + L  H   V    TP Q I      +T
Sbjct: 58  DYGLGRLVNTADDSQSII-----YQIVDDKGRKMLKDHGAEV----TPNQQITFRALNYT 108

Query: 301 NTTIPKPQGIYWDKL 315
           +     P GIY D++
Sbjct: 109 SGDKEIPPGIYNDQV 123


>pdb|4B9I|A Chain A, Structure Of Cssa Subunit Complemented With Donor Strand
           From Cssb Subunit Of Enterotoxigenic Escherichia Coli
           Colonization Factor Cs6
          Length = 149

 Score = 28.1 bits (61), Expect = 8.0,   Method: Compositional matrix adjust.
 Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 15/75 (20%)

Query: 247 EYGMLRYMGAIDDSTPVVTSVHDYQLVDDIPVEKLLIHDVPVDIICTPTQVI------FT 300
           +YG+ R +   DDS  ++     YQ+VDD   + L  H   V    TP Q I      +T
Sbjct: 58  DYGLGRLVNTADDSQSII-----YQIVDDKGRKMLKDHGAEV----TPNQQITFRALNYT 108

Query: 301 NTTIPKPQGIYWDKL 315
           +     P GIY D++
Sbjct: 109 SGDKEIPPGIYNDQV 123


  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
   0.316    0.134    0.390 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,394,290
Number of Sequences: 62578
Number of extensions: 428582
Number of successful extensions: 888
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 888
Number of HSP's gapped (non-prelim): 7
length of query: 357
length of database: 14,973,337
effective HSP length: 100
effective length of query: 257
effective length of database: 8,715,537
effective search space: 2239893009
effective search space used: 2239893009
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)