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= 046354
         (510 letters)

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

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



>pdb|4A1F|A Chain A, Crystal Structure Of C-Terminal Domain Of Helicobacter
           Pylori Dnab Helicase
 pdb|4A1F|B Chain B, Crystal Structure Of C-Terminal Domain Of Helicobacter
           Pylori Dnab Helicase
          Length = 338

 Score = 33.1 bits (74), Expect = 0.36,   Method: Compositional matrix adjust.
 Identities = 19/70 (27%), Positives = 35/70 (50%), Gaps = 2/70 (2%)

Query: 349 VLSDCSHAGLVEKGRKTFNLMSRAYGFKPRAEHYSCLADILRRAGQVKEAMRVVSKMPPH 408
           +LSD   +G +E+       + R Y ++ RAE      D L++ G+++EA  +  K+   
Sbjct: 218 ILSDIKDSGGIEQDADIVLFLYRGYIYQMRAEDNKI--DKLKKEGKIEEAQELYLKVNEE 275

Query: 409 ERDHVVLGAL 418
            R H   G++
Sbjct: 276 RRIHKQNGSI 285


>pdb|4FXG|C Chain C, Complement C4 In Complex With Masp-2
 pdb|4FXG|F Chain F, Complement C4 In Complex With Masp-2
 pdb|4FXK|C Chain C, Human Complement C4
          Length = 291

 Score = 31.6 bits (70), Expect = 1.2,   Method: Compositional matrix adjust.
 Identities = 26/92 (28%), Positives = 40/92 (43%), Gaps = 8/92 (8%)

Query: 241 TTCTSILTSC-EGMLENMLAHALAIRLGFEQETSLTYKCTCHYVFWDWGFQLDV--NSAR 297
           T C++ +  C EG          A+  G + E     K  C+Y   ++GFQ+ V    +R
Sbjct: 128 TLCSAEVCQCAEGKCPR---QRRALERGLQDEDGYRMKFACYYPRVEYGFQVKVLREDSR 184

Query: 298 LAFERLEAK--DVVSWTAMILAYSNHGHGFQV 327
            AF   E K   V+ +T  + A +N    F V
Sbjct: 185 AAFRLFETKITQVLHFTKDVKAAANQMRNFLV 216


>pdb|2WQH|A Chain A, Crystal Structure Of Ctpr3y3
          Length = 125

 Score = 31.2 bits (69), Expect = 1.4,   Method: Composition-based stats.
 Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 4/64 (6%)

Query: 66  DGYVKAGRVDEARKVFD---EIYEGNVYSWTSLISGYFKARQVDEGRRLFDR-MPLKLKN 121
           + Y K G  DEA + +    E+Y  N  +W +L + Y+K    DE    + + + L   N
Sbjct: 17  NAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELYPNN 76

Query: 122 VVSW 125
             +W
Sbjct: 77  AEAW 80



 Score = 30.0 bits (66), Expect = 3.5,   Method: Composition-based stats.
 Identities = 15/52 (28%), Positives = 25/52 (48%), Gaps = 3/52 (5%)

Query: 66  DGYVKAGRVDEARKVFD---EIYEGNVYSWTSLISGYFKARQVDEGRRLFDR 114
           + Y K G  DEA + +    E+Y  N  +W +L + Y+K    DE    + +
Sbjct: 51  NAYYKQGDYDEAIEYYQKALELYPNNAEAWYNLGNAYYKQGDYDEAIEYYQK 102


>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s
           Proteasome
          Length = 945

 Score = 29.6 bits (65), Expect = 3.8,   Method: Compositional matrix adjust.
 Identities = 19/76 (25%), Positives = 38/76 (50%), Gaps = 3/76 (3%)

Query: 137 LIAKLEVISWTTMCTGLERNAMTKLAREYFVQMPNKDIVAWNAMITAYVDAGNMAQASEL 196
           +I  L  ++ TT+     R+++ + + ++ + MPN D +  N ++    DAG    A +L
Sbjct: 185 IINYLLTLAITTVTNSKFRSSILRKSFDFLMNMPNCDYLTLNKVVVNLNDAG---LALQL 241

Query: 197 FNLMPQRNVWTWNAMI 212
           F  + + N    +A I
Sbjct: 242 FKKLKEENDEGLSAQI 257


>pdb|1JKW|A Chain A, Structure Of Cyclin Mcs2
          Length = 323

 Score = 28.9 bits (63), Expect = 8.1,   Method: Compositional matrix adjust.
 Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 14/84 (16%)

Query: 341 PDEITFVGVLSDCSHAGLVEKGRKTFNLMSRAYGFKPRAEHYSCLADILRRAGQVKEAMR 400
           P +I    +LS  S AG+  +   + +LM +        E+ +CL+ +L     + ++MR
Sbjct: 209 PSQIALTAILSSASRAGITMESYLSESLMLK--------ENRTCLSQLL----DIMKSMR 256

Query: 401 VVSKM--PPHERDHVVLGALLGAC 422
            + K   PP   +  VL   L  C
Sbjct: 257 NLVKKYEPPRSEEVAVLKQKLDRC 280


  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
   0.322    0.134    0.409 

Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,354,945
Number of Sequences: 62578
Number of extensions: 552347
Number of successful extensions: 1287
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: 1283
Number of HSP's gapped (non-prelim): 14
length of query: 510
length of database: 14,973,337
effective HSP length: 103
effective length of query: 407
effective length of database: 8,527,803
effective search space: 3470815821
effective search space used: 3470815821
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 54 (25.4 bits)