Alignments for a candidate for carB in Pseudomonas stutzeri RCH2

Align carbamoyl-phosphate synthase (glutamine-hydrolysing) (EC 6.3.5.5) (characterized)
to candidate GFF939 Psest_0968 carbamoyl-phosphate synthase, large subunit

Query= BRENDA::P00968
         (1073 letters)



>FitnessBrowser__psRCH2:GFF939
          Length = 1073

 Score = 1599 bits (4140), Expect = 0.0
 Identities = 813/1073 (75%), Positives = 911/1073 (84%), Gaps = 1/1073 (0%)

Query: 1    MPKRTDIKSILILGAGPIVIGQACEFDYSGAQACKALREEGYRVILVNSNPATIMTDPEM 60
            MPKRTDIKSILILGAGPIVIGQACEFDYSGAQACKAL+EEG+RVILVNSNPATIMTDP M
Sbjct: 1    MPKRTDIKSILILGAGPIVIGQACEFDYSGAQACKALKEEGFRVILVNSNPATIMTDPSM 60

Query: 61   ADATYIEPIHWEVVRKIIEKERPDAVLPTMGGQTALNCALELERQGVLEEFGVTMIGATA 120
            ADATYIEPI W  V KIIEKERPDA+LPTMGGQTALNCAL+LE+ GVL +FGV MIGA A
Sbjct: 61   ADATYIEPIKWATVAKIIEKERPDALLPTMGGQTALNCALDLEKHGVLAKFGVEMIGANA 120

Query: 121  DAIDKAEDRRRFDVAMKKIGLETARSGIAHTMEEALAVAADVGFPCIIRPSFTMGGSGGG 180
            D IDKAEDR RFD AMK IGL    SGIAH MEEA  V   VGFPCIIRPSFTMGG+GGG
Sbjct: 121  DTIDKAEDRSRFDKAMKDIGLACPVSGIAHNMEEAYGVLDKVGFPCIIRPSFTMGGTGGG 180

Query: 181  IAYNREEFEEICARGLDLSPTKELLIDESLIGWKEYEMEVVRDKNDNCIIVCSIENFDAM 240
            IAYNREEFEEICARGLDLSPT ELLIDESLIGWKEYEMEVVRDK DNCIIVCSIENFD M
Sbjct: 181  IAYNREEFEEICARGLDLSPTSELLIDESLIGWKEYEMEVVRDKKDNCIIVCSIENFDPM 240

Query: 241  GIHTGDSITVAPAQTLTDKEYQIMRNASMAVLREIGVETGGSNVQFAVNPKNGRLIVIEM 300
            G+HTGDSITVAPAQTLTDKEYQI+RNAS+AVLREIGVETGGSNVQF + P  GR++VIEM
Sbjct: 241  GVHTGDSITVAPAQTLTDKEYQILRNASLAVLREIGVETGGSNVQFGICPNTGRMVVIEM 300

Query: 301  NPRVSRSSALASKATGFPIAKVAAKLAVGYTLDELMNDITGGRTPASFEPSIDYVVTKIP 360
            NPRVSRSSALASKATGFPIAK+AAKLAVGYTLDEL NDITGGRTPASFEP+IDYVVTKIP
Sbjct: 301  NPRVSRSSALASKATGFPIAKIAAKLAVGYTLDELSNDITGGRTPASFEPAIDYVVTKIP 360

Query: 361  RFNFEKFAGANDRLTTQMKSVGEVMAIGRTQQESLQKALRGLEVGATGFDPKVSLDDPEA 420
            RF FEKF  A+ RLTTQMKSVGEVMAIGRT QES+QKALRGLEVGATGFDPK++L D EA
Sbjct: 361  RFAFEKFPKADARLTTQMKSVGEVMAIGRTFQESMQKALRGLEVGATGFDPKLNLADAEA 420

Query: 421  LTKIRRELKDAGADRIWYIADAFRAGLSVDGVFNLTNIDRWFLVQIEELVRLEEKVAEVG 480
             + ++REL   GADRIW++ADAFRAG +V  VF LT ID WFLVQIE+LVR EE V  +G
Sbjct: 421  ESTLKRELTVPGADRIWFVADAFRAGKTVAEVFELTRIDEWFLVQIEDLVRDEEHVKTLG 480

Query: 481  ITGLNADFLRQLKRKGFADARLAKLAGVREAEIRKLRDQYDLHPVYKRVDTCAAEFATDT 540
            ++ ++ D + +LKRKGF+DARLAKL GV E  +R  R +  + PVYKRVDTCAAEFATDT
Sbjct: 481  LSSIDRDLMYKLKRKGFSDARLAKLLGVTEKNLRSHRHKLKVLPVYKRVDTCAAEFATDT 540

Query: 541  AYMYSTYEEECEANPSTDREKIMVLGGGPNRIGQGIEFDYCCVHASLALREDGYETIMVN 600
            AYMYSTYEEECEANPS+ REKIM+LGGGPNRIGQGIEFDYCCVHA+LA+REDGYETIMVN
Sbjct: 541  AYMYSTYEEECEANPSS-REKIMILGGGPNRIGQGIEFDYCCVHAALAMREDGYETIMVN 599

Query: 601  CNPETVSTDYDTSDRLYFEPVTLEDVLEIVRIEKPKGVIVQYGGQTPLKLARALEAAGVP 660
            CNPETVSTDYDTSDRLYFEPVTLEDVLEIVR+E+PKGVIVQYGGQTPLK+ RALE AGVP
Sbjct: 600  CNPETVSTDYDTSDRLYFEPVTLEDVLEIVRVEQPKGVIVQYGGQTPLKICRALEEAGVP 659

Query: 661  VIGTSPDAIDRAEDRERFQHAVERLKLKQPANATVTAIEMAVEKAKEIGYPLVVRPSYVL 720
            +IGTSPDAIDRAEDRERFQ  V+RL L+QP NAT  + E A+  +K IGYPLVVRPSYVL
Sbjct: 660  IIGTSPDAIDRAEDRERFQQMVQRLNLRQPQNATARSEEEAIAASKAIGYPLVVRPSYVL 719

Query: 721  GGRAMEIVYDEADLRRYFQTAVSVSNDAPVLLDHFLDDAVEVDVDAICDGEMVLIGGIME 780
            GGRAMEIVY+E +L+RY + AV VSND+PVLLDHFL+ A+EVD+DA+CDG  V+IGGIM+
Sbjct: 720  GGRAMEIVYEEEELKRYMREAVQVSNDSPVLLDHFLNCAIEVDIDAVCDGTDVVIGGIMQ 779

Query: 781  HIEQAGVHSGDSACSLPAYTLSQEIQDVMRQQVQKLAFELQVRGLMNVQFAVKNNEVYLI 840
            HIEQAGVHSGDSACSLPAY+L Q IQD +R QV+K+A EL V GLMNVQ AV+  ++Y++
Sbjct: 780  HIEQAGVHSGDSACSLPAYSLPQHIQDEIRDQVRKMALELDVIGLMNVQMAVQGEDIYVL 839

Query: 841  EVNPRAARTVPFVSKATGVPLAKVAARVMAGKSLAEQGVTKEVIPPYYSVKEVVLPFNKF 900
            EVNPRA+RTVPFVSK  G  LAKVAARVMAGK+L E G T+E+IP YYSVKE V PF KF
Sbjct: 840  EVNPRASRTVPFVSKCIGESLAKVAARVMAGKTLKEIGFTREIIPTYYSVKEAVFPFAKF 899

Query: 901  PGVDPLLGPEMRSTGEVMGVGRTFAEAFAKAQLGSNSTMKKHGRALLSVREGDKERVVDL 960
            PGVD +LGPEM+STGEVMGVG +FAEAFAKAQLG++  +   G A LSVRE DK  V  +
Sbjct: 900  PGVDTILGPEMKSTGEVMGVGDSFAEAFAKAQLGASEILPTSGCAFLSVREDDKPYVEQV 959

Query: 961  AAKLLKQGFELDATHGTAIVLGEAGINPRLVNKVHEGRPHIQDRIKNGEYTYIINTTSGR 1020
            A  L+  GFE+ AT GTA ++  AG+  R VNKV EGRPH+ D IKN E T +INTT GR
Sbjct: 960  ARDLVGLGFEVVATAGTARIIEAAGLPVRRVNKVTEGRPHVVDMIKNDEVTLVINTTEGR 1019

Query: 1021 RAIEDSRVIRRSALQYKVHYDTTLNGGFATAMALNADATEKVISVQEMHAQIK 1073
            ++I DS  IRR+ALQ+K+   TT+ GG A   AL     + V  +Q++HA IK
Sbjct: 1020 QSIADSYSIRRNALQHKICITTTIAGGQAICEALKFGPEKTVRRLQDLHAGIK 1072


Lambda     K      H
   0.318    0.135    0.383 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 1
Number of Hits to DB: 3195
Number of extensions: 127
Number of successful extensions: 14
Number of sequences better than 1.0e-02: 1
Number of HSP's gapped: 1
Number of HSP's successfully gapped: 1
Length of query: 1073
Length of database: 1073
Length adjustment: 45
Effective length of query: 1028
Effective length of database: 1028
Effective search space:  1056784
Effective search space used:  1056784
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: 58 (26.9 bits)

Align candidate GFF939 Psest_0968 (carbamoyl-phosphate synthase, large subunit)
to HMM TIGR01369 (carB: carbamoyl-phosphate synthase, large subunit (EC 6.3.5.5))

Software error:

../bin/blast/fastacmd -i /tmp/list.23756.in -d ../tmp/orgsDef_201/orgs.faa -p T > /tmp/gapView.23756.genome.faa failed: Inappropriate ioctl for device at ../lib/pbutils.pm line 379.

For help, please send mail to the webmaster (help@microbesonline.org), giving this error message and the time and date of the error.