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= 0001.4672.p
         (642 letters)

Database: BlastDatabases/690/690 
           3295 sequences; 1,000,347 total letters

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|134096565|ref|YP_001101640.1| tRNA uridine 5-carboxymethylami...  1048   0.0  

>gi|134096565|ref|YP_001101640.1| tRNA uridine
           5-carboxymethylaminomethyl modification enzyme GidA
           [Herminiimonas arsenicoxydans]
          Length = 601

 Score = 1048 bits (2709), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 491/592 (82%), Positives = 548/592 (92%)

Query: 45  MSCNPSIGGIGKGHLVKEVDAMGGAMAIATDEAGIQFRILNSSKGPAVRATRAQADRILY 104
           MSCNPSIGGIGKGHLV+EVDAMGGAMAIATDEAGIQFRILNSSKGPAVRATRAQADRILY
Sbjct: 1   MSCNPSIGGIGKGHLVREVDAMGGAMAIATDEAGIQFRILNSSKGPAVRATRAQADRILY 60

Query: 105 KAAIRSRLENQPNLWLFQQAVDDLMLEGDRVVGAITQAGIRFAGRAVVLTAGTFLDGKIH 164
           K AIRSRLENQPNLWLFQQ VDDL++EGDRVVGA+TQAGI+F  RAVVLTAGTFLDGKIH
Sbjct: 61  KQAIRSRLENQPNLWLFQQGVDDLLVEGDRVVGAVTQAGIQFRARAVVLTAGTFLDGKIH 120

Query: 165 VGLNNYSGGRAGDPPAVSLSARLKELKLPQGRLKTGTPPRIDGRTINLAILEEQPGDLDP 224
           +G+NNYS GRAGDPPA+SLSARLKELKLPQGRLKTGTPPRIDGR+I+ +++ EQPGDLDP
Sbjct: 121 IGMNNYSAGRAGDPPAISLSARLKELKLPQGRLKTGTPPRIDGRSIDFSVMTEQPGDLDP 180

Query: 225 VPVFSVMGNAAMHPRQMPCWITHTNSRTHDIIRGGLDRSPMYTGVIEGVGPRYCPSIEDK 284
           +PVFSVMG+ AMHP+QMPCWITHTN +TH++IRGGLDRSPMYTG+IEGVGPRYCPSIEDK
Sbjct: 181 IPVFSVMGSVAMHPQQMPCWITHTNEKTHELIRGGLDRSPMYTGMIEGVGPRYCPSIEDK 240

Query: 285 IHRFASKDSHQIYLEPEGLTTHEFYPNGISTSLPFDVQLELVRSMKGMENAHILRPGYAI 344
           IHRFA K+SHQI+LEPEGLTT+E+YPNGISTSLPFDVQL LV+SM+G+E+AHILRPGYAI
Sbjct: 241 IHRFAGKESHQIFLEPEGLTTNEYYPNGISTSLPFDVQLALVQSMRGLEHAHILRPGYAI 300

Query: 345 EYDYYDPRGLKSSLETRQVQGLFFAGQINGTTGYEEAAAQGMLAGINAALQTQGREAWTP 404
           EYDY+DPRGLK++LET+ +QGLFFAGQINGTTGYEEAAAQGMLAGINAALQ Q R+AWTP
Sbjct: 301 EYDYFDPRGLKATLETKVIQGLFFAGQINGTTGYEEAAAQGMLAGINAALQIQERDAWTP 360

Query: 405 RRDEAYLGVLVDDLVTQGVQEPYRMFTSRAEYRLSLREDNADLRLTEIGRELGCVGDAQW 464
           RRDEAYLGVLVDDL+TQGV EPYRMFTSRAEYRLSLREDNAD+RLT++GR+LGCVGD QW
Sbjct: 361 RRDEAYLGVLVDDLITQGVLEPYRMFTSRAEYRLSLREDNADMRLTDVGRQLGCVGDVQW 420

Query: 465 EAFDRKREAVSREMERLKSTWVNPRILAAAEAERVLGKAIEREYNLLDLLRRPNVSYDSL 524
             F+ KREAV+RE+ERL+STWV+PRILA AEAERVLGK IEREY L DLLRRPNV+Y++L
Sbjct: 421 ALFETKREAVARELERLRSTWVSPRILAEAEAERVLGKGIEREYALADLLRRPNVTYETL 480

Query: 525 MGLTGAEGQSLAGPGIEDGPVREQVEIQVKYAGYIARQANEISRQDHNENLKLPADLDYM 584
           M L G +GQ L GPG+ +  VREQVEIQ+KYAGYI RQA E+ R DH ENLKLPA+ DYM
Sbjct: 481 MSLKGMDGQDLGGPGVAEPAVREQVEIQLKYAGYIDRQAREVERHDHYENLKLPAEFDYM 540

Query: 585 EVKALSIEVRQKLNKHRPETLGQASRISGVTPAALSLLLVHLKKGVLKQPAS 636
            VK LSIEVRQKL K RPETLGQASRISGVTPAA+SL+LVHLKKG  K+ A+
Sbjct: 541 AVKGLSIEVRQKLTKQRPETLGQASRISGVTPAAISLMLVHLKKGGFKEFAA 592


  Database: BlastDatabases/690/690
    Posted date:  Apr 9, 2011  4:48 AM
  Number of letters in database: 1,000,347
  Number of sequences in database:  3295
  
Lambda     K      H
   0.317    0.135    0.392 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3295
Number of Hits to DB: 1,186,843
Number of extensions: 50554
Number of successful extensions: 131
Number of sequences better than 1.0e-08: 1
Number of HSP's gapped: 130
Number of HSP's successfully gapped: 1
Length of query: 642
Length of database: 1,000,347
Length adjustment: 88
Effective length of query: 554
Effective length of database: 710,387
Effective search space: 393554398
Effective search space used: 393554398
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 132 (55.5 bits)