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= 0001.0186.p
         (312 letters)

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

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



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

gi|300309518|ref|YP_003773610.1| ornithine cyclodeaminase [Herba...   508   e-145
gi|300313853|ref|YP_003777945.1| ornithine cyclodeaminase [Herba...    57   3e-09
gi|300309407|ref|YP_003773499.1| ornithine cyclodeaminase [Herba...    55   7e-09

>gi|300309518|ref|YP_003773610.1| ornithine cyclodeaminase
           [Herbaspirillum seropedicae SmR1]
          Length = 312

 Score =  508 bits (1308), Expect = e-145,   Method: Compositional matrix adjust.
 Identities = 273/312 (87%), Positives = 284/312 (91%)

Query: 1   MHILDSRQTAQALPYAALVDALARAAQELANGTIRAPERQVVPIDAASVLLTMPAIADDL 60
           MHILD RQTAQALPYAALVDALARA QELA+G IRAPERQVVPIDAASVLL MPAIADDL
Sbjct: 1   MHILDPRQTAQALPYAALVDALARATQELADGRIRAPERQVVPIDAASVLLGMPAIADDL 60

Query: 61  SVTKLITVHADNALHQLPAIQGEVIAFDTHTGRRLALMDGPTVTARRTAAMSMLGIRSLL 120
           SVTKLITVHADNA HQLPAIQGEVIAF+T TGRRLALMDGPTVTARRTAAMSMLGIR+LL
Sbjct: 61  SVTKLITVHADNARHQLPAIQGEVIAFETQTGRRLALMDGPTVTARRTAAMSMLGIRTLL 120

Query: 121 PRTPQSALLIGTGAQAAAHADALVQVFGVHQFWIAARDLERTQAFCHALSARHPQAVASP 180
           PR PQSALLIGTG Q+AAHADALV+ FGV QFWI ARDL RTQAFC ALS RHPQAVASP
Sbjct: 121 PRQPQSALLIGTGVQSAAHADALVEFFGVRQFWIVARDLARTQAFCRALSERHPQAVASP 180

Query: 181 LPAQMLQEDLPGTDVVIALTTSRVAVIPEQIAPDTLAIGVGAFKPDMVEFPASLLHERRI 240
           LPAQMLQ+DLP TDVVIALTTSR AVIPE IA DTLAIGVGAFKPDMVEFPASLLH RRI
Sbjct: 181 LPAQMLQQDLPHTDVVIALTTSRSAVIPEHIAADTLAIGVGAFKPDMVEFPASLLHARRI 240

Query: 241 VVDDVAGAHHEAGDLIQAKVDWSRVVGIAEVLAGSVPSATLHSAGALPVFKTVGQAAWDL 300
           VVDD+AGAHHEAGDLIQA VDWS VV IA+V+AG  P+A L S  ALPVFKTVGQAAWDL
Sbjct: 241 VVDDLAGAHHEAGDLIQAGVDWSGVVAIADVVAGRAPAAALASGAALPVFKTVGQAAWDL 300

Query: 301 AAARVMRATLGI 312
           AAARVMRATLG+
Sbjct: 301 AAARVMRATLGL 312


>gi|300313853|ref|YP_003777945.1| ornithine cyclodeaminase
           [Herbaspirillum seropedicae SmR1]
          Length = 306

 Score = 56.6 bits (135), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 59/198 (29%), Positives = 93/198 (46%), Gaps = 15/198 (7%)

Query: 87  FDTHTGRRLALMDGPTVTARRTAAMSMLGIRSLLPRTPQSALL--IGTGAQAAAHADALV 144
           F T TG  L  M+G  +T  RTAA + +   +L    P + +L  IGTG QA +H  AL+
Sbjct: 80  FSTETGAPLCTMEGDAMTGLRTAAATAVACDALA--RPDAGVLAVIGTGVQARSHIPALL 137

Query: 145 QVFGVHQFWIAARDLERTQAFCHALSARHPQAVASPLPAQMLQEDLPGTDVVIALTTSRV 204
           QV    +  IA R  +       AL+    + +  P     + E     DV++ +T S  
Sbjct: 138 QVRPFKEVLIAGRSGQ------QALAEEVTRTLGVPARMVSIDEAAAQADVLVTVTRSAT 191

Query: 205 AVIP-EQIAPDTLAIGVGAFKPDMVEFPASLLHE-RRIVVDDVAGAHHEAGDLIQAK--- 259
            +   E + P      VGA K ++ E   + +     + V+    A  EAGDL+Q     
Sbjct: 192 PLFDGELLRPGAFVAAVGASKANVRELDDTAIGRAAALFVEWKPQAQQEAGDLVQCAPGV 251

Query: 260 VDWSRVVGIAEVLAGSVP 277
            DW++V+ +A+ + GS+P
Sbjct: 252 FDWAQVMELAQAVDGSMP 269


>gi|300309407|ref|YP_003773499.1| ornithine cyclodeaminase
           [Herbaspirillum seropedicae SmR1]
          Length = 347

 Score = 55.1 bits (131), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 79/270 (29%), Positives = 111/270 (41%), Gaps = 22/270 (8%)

Query: 46  AASVLLTMPAIADDLSVTKLITVHADNALHQLPAIQGEVIAFDTHTGRRLALMDGPTVTA 105
           A  V+  MP     L   K +  H  N    L  +    +  D  +G    L +    TA
Sbjct: 51  AQGVIELMPISDGRLYCFKYVNGHPANTAQGLLTVTAFGVLADVASGYPRLLSELTLTTA 110

Query: 106 RRTAAMSMLGIRSLLPRTPQSALLIGTGAQAAAHADALVQVFGV-HQFWIAARDLERTQA 164
            RTAA S+L  R +     +   +IG GAQ+        Q+    HQ  I    L  T  
Sbjct: 111 LRTAATSVLAARQMARSDSRVMAVIGNGAQSE------FQILAFHHQMGIEVVRLYDTDP 164

Query: 165 FCHALSARHPQAVAS--PLPAQMLQEDLPGTDVVIALTT-SRVAVIPEQIAPDTLAIG-- 219
              A   R+ +A +    +P     E + G D+V  LT   R A I   I+P  L  G  
Sbjct: 165 AATARLMRNLRACSGLQLIPCASAAEAVRGADIVTTLTADKRRACI---ISPAMLEAGMH 221

Query: 220 ---VGAFKPDMVEFPASLLHERRIVVDDVAGAHHEAGDLIQAKVDWSRVVGIAEVLAGSV 276
              VG   P   E  A +L   R+VV+    +  E G++ Q   D+  V  + +VLAG  
Sbjct: 222 LNAVGGDCPGKTELHADVLKAARVVVEFAPQSRIE-GEVQQMPADFP-VTELWQVLAGHA 279

Query: 277 PSATLHSAGALPVFKTVGQAAWDLAAARVM 306
           P  +  SA  + VF +VG A  D AA R +
Sbjct: 280 PGRS--SAAEVTVFDSVGFALEDFAALRYL 307


  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    0.132    0.379 

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: 959,019
Number of extensions: 40124
Number of successful extensions: 158
Number of sequences better than 1.0e-08: 3
Number of HSP's gapped: 158
Number of HSP's successfully gapped: 3
Length of query: 312
Length of database: 1,619,870
Length adjustment: 85
Effective length of query: 227
Effective length of database: 1,217,395
Effective search space: 276348665
Effective search space used: 276348665
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: 130 (54.7 bits)