BLASTP 2.2.18 [Mar-02-2008]


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= 0188.0022.p
         (340 letters)

Database: COG 
           115,334 sequences; 38,378,431 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

STM4208 [R] COG3500 Phage protein D                                   118   1e-26
STM2695 [R] COG3500 Phage protein D                                    65   2e-10

>STM4208 [R] COG3500 Phage protein D
          Length = 347

 Score =  118 bits (296), Expect = 1e-26,   Method: Compositional matrix adjust.
 Identities = 91/337 (27%), Positives = 159/337 (47%), Gaps = 20/337 (5%)

Query: 8   VLELKYNGKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWVPVEGDQINA 67
           +  L Y  K+IT DIA  +T   Y+D++    D + ++LED    W   W P +GD +  
Sbjct: 17  IFTLWYGHKEITYDIAPYVTSISYSDSIKNESDVIAIALEDSTGRWVNEWYPGKGDTL-- 74

Query: 68  SIRTINWDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRSSRSWEKT 127
               +     GE+  L  G + ID ID + PP T++I  ++  +S  +R  ++S+ +E+T
Sbjct: 75  ---ALRLGYQGED-LLDCGIYVIDKIDISAPPSTVNIDGIATSVSKALRT-KNSQGFEET 129

Query: 128 NLKTVAAQVAKRANLKLIYEAQDNP-SYERLEQSEMSDLAFLLNTATQEGIAIKVSGGSL 186
            L  +A+++A++  L L    +  P + +R+ Q   +D+AFL   A++ G  +KV+   L
Sbjct: 130 TLSAIASRIAQKHGLTL--AGKIAPLTIDRVTQYAETDVAFLKRLASEYGYTVKVTATEL 187

Query: 187 ILFDEMVYEQKEAITTIVRGDDNVTGYSFALNTAYAAFRACTVTYTPPTSKEPLKATY-- 244
           I            + T+ R D  V+ Y+F  +T    ++  TV +     KE +  T+  
Sbjct: 188 IFSHLPTLRCLAPVKTLRRTD--VSHYTFK-DTINRIYKNATVQHQNSKQKELVIYTHDS 244

Query: 245 ----TPNGAPKNGPVLKINEQVDTXXXXXXXXXXXXXXXXXEGGKGTLSLMGDIRMVTGL 300
               +  GA  +   LKIN +                        GTLSLMG  ++  G 
Sbjct: 245 QEKTSARGAATSADTLKINSRAPDTGAAQAKANAALDSHNEYQQTGTLSLMGCPQLTAGN 304

Query: 301 TINIKGWQRFDGKYIIESAKHSIG-SSGYTTNLEIRK 336
            I +  +    G+++I+ + H +  S GYTT ++I +
Sbjct: 305 KIELSDFGVLSGQWLIDKSMHKLTRSGGYTTEIDISR 341


>STM2695 [R] COG3500 Phage protein D
          Length = 366

 Score = 64.7 bits (156), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 60/231 (25%), Positives = 99/231 (42%), Gaps = 19/231 (8%)

Query: 15  GKDITMDIAKSLTDFQYNDAVSGSLDDLTVSLEDRERNWQGPWV-PVEGDQINASIRTIN 73
           GKD+T  +   L      D      D L + L+D +    G  V P  G  I+ ++    
Sbjct: 23  GKDVTTVMDARLMSLTLTDNRGFEADQLDLELDDAD----GQIVLPRRGAVIHLAL---G 75

Query: 74  WDKPGENKKLPLGTFEIDSIDFNGPPDTISIKAVSLPISSEIRMQRSSRSWEKTNLKTVA 133
           W         P G F +D I+ +G PD ++I+A S      +  +R  +SW +T +  V 
Sbjct: 76  WKG---QPLFPKGAFTVDEIEHSGAPDRLTIRARSADFRETLNTRR-EKSWHQTTVGEVV 131

Query: 134 AQVAKRANLKLIYEAQD--NPSYERLEQSEMSDLAFLLNTATQEGIAIKVSGGSLILFDE 191
            ++A R NLK+    QD  + + + ++Q+  SD +FL+  A Q G    V  G+L+   +
Sbjct: 132 KEIAARHNLKVAL-GQDLTDKALDHMDQTNESDASFLMKLARQYGAIASVKDGNLLFIRQ 190

Query: 192 ----MVYEQKEAITTIVRGDDNVTGYSFALNTAYAAFRACTVTYTPPTSKE 238
                   +   + TI R   +   ++ A   AY    A  +    P  KE
Sbjct: 191 GQGRTASGKPLPVITITRKAGDGHRFTLADRGAYTGVIASWLHTREPRKKE 241


  Database: COG
    Posted date:  Aug 3, 2010  9:58 AM
  Number of letters in database: 38,378,431
  Number of sequences in database:  115,334
  
Lambda     K      H
   0.313    0.131    0.377 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 115334
Number of Hits to DB: 23,287,158
Number of extensions: 944337
Number of successful extensions: 1605
Number of sequences better than 1.0e-05: 2
Number of HSP's gapped: 1604
Number of HSP's successfully gapped: 2
Length of query: 340
Length of database: 38,378,431
Length adjustment: 107
Effective length of query: 233
Effective length of database: 26,037,693
Effective search space: 6066782469
Effective search space used: 6066782469
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 116 (49.3 bits)