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= 0034.0049.p
         (798 letters)

Database: BlastDatabases/689/689 
           4735 sequences; 1,619,870 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300311755|ref|YP_003775847.1| DNA polymerase II protein [Herb...  1366   0.0  

>gi|300311755|ref|YP_003775847.1| DNA polymerase II protein
           [Herbaspirillum seropedicae SmR1]
          Length = 790

 Score = 1366 bits (3536), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 663/790 (83%), Positives = 715/790 (90%), Gaps = 4/790 (0%)

Query: 13  LRPGERAGFLLSRHWRDTSAGVEIELWVATDDGPQCLRLPPQTAVAFVPQAEAERVQALI 72
           +RPGERAGF+L+RHWRDT AGVEIELW+ATD G QCLRLPPQ AVAFVPQ+E  RVQ L+
Sbjct: 1   MRPGERAGFILTRHWRDTPAGVEIELWLATDTGAQCLRLPPQQAVAFVPQSEQARVQDLL 60

Query: 73  AHEPGMELRALEHLKDVSQRPVLGLYARQYRKLLKMEKTLIAAGISVYEADIRPPERYLM 132
               G+EL+ LE LKD SQRPV+GLYAR YR+LL++EK L+AAGISVYEADIRPPERYLM
Sbjct: 61  RGVAGVELKPLEALKDFSQRPVMGLYARHYRQLLRLEKQLVAAGISVYEADIRPPERYLM 120

Query: 133 ERFINAPLAFQGVDDGHGVLAEARIRALPGYRPPLRLASLDIETSWQGELYSIAIEGCGQ 192
           ERFINAP+AF GVDDG GVL +AR+R LPGYRPPLRLASLDIETSWQGELYSIAIEGCGQ
Sbjct: 121 ERFINAPVAFGGVDDGQGVLGQARLRPLPGYRPPLRLASLDIETSWQGELYSIAIEGCGQ 180

Query: 193 RSVYALGPPSGAVESVDFALQFCQSRKELIDCLNDWVARHDPDALIGWNLVQFDLNVLQK 252
           R+VY L P SGAV++VDFAL FC SR+ELI+ LN W+ARHDPD +IGWNL+QFDLNVLQK
Sbjct: 181 RTVYTLAPASGAVQAVDFALHFCDSRRELIEALNAWMARHDPDVIIGWNLIQFDLNVLQK 240

Query: 253 QAQKYHTTLRLGRAGRALEWREHGMRANHLLVNAAGRLVIDGIESLRGAFWNFPSFSLEN 312
           QA +Y T L  GRA + LEWR+HG+RA HLLV+A GRLVIDGIESLR AFWNFPSFSLEN
Sbjct: 241 QADQYQTRLLPGRAAQPLEWRKHGLRAGHLLVSAPGRLVIDGIESLRSAFWNFPSFSLEN 300

Query: 313 VAQSLLGEGKAIATPYQRMDEIDRMFNEDKAALATYNLKDCELVTRIFAKTDILSFLLER 372
           VAQ+LLGEGKAIATPYQRMDEIDRMF ED+AALATYNLKDCELVTRIFA TDILSFLLER
Sbjct: 301 VAQTLLGEGKAIATPYQRMDEIDRMFAEDRAALATYNLKDCELVTRIFAVTDILSFLLER 360

Query: 373 ASVTIL----SVRTPSCFAGLYLPHMHRKGYVAPNLGDAEALASPGGFVMDSRAGLYDSV 428
           ASVT L    S  + + F  LYLP +HRKGYVAPNLGDAEALASPGGFVMDSR+GLYDSV
Sbjct: 361 ASVTGLPADRSGGSVAAFTHLYLPQLHRKGYVAPNLGDAEALASPGGFVMDSRSGLYDSV 420

Query: 429 IVLDYKSLYPSIIRSFLIDPVGLVDGTLNEPESETVPGYNGARFSRRSHSLPAIIEQIWQ 488
           IVLDYKSLYPSIIRSFLIDP GLVDGTLNE E++TVPG+NGARFSRRSHSLPAIIEQIWQ
Sbjct: 421 IVLDYKSLYPSIIRSFLIDPAGLVDGTLNESEAQTVPGFNGARFSRRSHSLPAIIEQIWQ 480

Query: 489 GREAAKAQGNKPLQQALKIIMNSFYGVLGSTGCRFFDSRLASSITRRGHEIMHRTRELIE 548
            RE AKAQGNK LQQALKIIMNSFYGVLGSTGCRFFDSRLASSITRRGHEIMHRTRELIE
Sbjct: 481 AREQAKAQGNKALQQALKIIMNSFYGVLGSTGCRFFDSRLASSITRRGHEIMHRTRELIE 540

Query: 549 EAGYEVIYGDTDSTFVWLRRPHGDDEARQIGLQLTARINDWWRRHLAGQYQLESALELQF 608
           E GYEVIYGDTDSTFVWLR  H D+EAR IGL LT+RINDWWR HL  QY LESALELQ+
Sbjct: 541 EQGYEVIYGDTDSTFVWLRSAHSDEEARSIGLALTSRINDWWRLHLRQQYGLESALELQY 600

Query: 609 EVHYQRFLMPHVRGAETGSKKRYAGYVRTSEGEDKVTYKGLETVRTDWSPLAQRFQQALY 668
           EVHYQRFLMP VRG++TGSKKRYAGYVRT+EGEDKVTYKGLETVRTDW+PLAQRFQQ LY
Sbjct: 601 EVHYQRFLMPTVRGSDTGSKKRYAGYVRTAEGEDKVTYKGLETVRTDWTPLAQRFQQELY 660

Query: 669 LRIFRGEPYRDFITGYVADLLAGRLDDLLVYRKRLRRQLDHYEKNVPPHVRAARMADQVN 728
           LRIFRGE YRD++  YVA+LLAGRLD+LLVYRKRLRRQLDHYEKNVPPHVRAARMADQVN
Sbjct: 661 LRIFRGETYRDYVRSYVAELLAGRLDELLVYRKRLRRQLDHYEKNVPPHVRAARMADQVN 720

Query: 729 EEGGRPLQYQQGGWINYVMTTAGPEPLEKRRAAIDYGHYLERQLAPVADAILVFVGDSFA 788
           ++ GRPLQYQQGGWI YVMTTAGPEPLEKR AAIDYGHYLERQLAPVADAILVFVGDSFA
Sbjct: 721 QDDGRPLQYQQGGWITYVMTTAGPEPLEKRSAAIDYGHYLERQLAPVADAILVFVGDSFA 780

Query: 789 AVTSPQQELF 798
           A+TSPQQELF
Sbjct: 781 ALTSPQQELF 790


  Database: BlastDatabases/689/689
    Posted date:  Apr 10, 2011 12:15 AM
  Number of letters in database: 1,619,870
  Number of sequences in database:  4735
  
Lambda     K      H
   0.321    0.138    0.416 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 4735
Number of Hits to DB: 2,614,315
Number of extensions: 113997
Number of successful extensions: 352
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 350
Number of HSP's successfully gapped: 1
Length of query: 798
Length of database: 1,619,870
Length adjustment: 93
Effective length of query: 705
Effective length of database: 1,179,515
Effective search space: 831558075
Effective search space used: 831558075
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 134 (56.2 bits)