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TBLASTN 2.2.15 [Oct-15-2006]


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.

Query= PYRD_ECOLI Dihydroorotate dehydrogenase
(336 letters)

Database: all
884 sequences; 12,243,887 total letters

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



Score E
Sequences producing significant alignments: (bits) Value

AE008746 AE006468 |AE008746| Salmonella typhimurium LT2, section... 620 e-178
embl|AE006098|AE006098 Pasteurella multocida subsp. multocida st... 399 e-112
AE012280 AE008922 |AE012280| Xanthomonas campestris pv. campestr... 310 3e-85

>AE008746 AE006468 |AE008746| Salmonella typhimurium LT2, section 50
of 220 of the complete genome.
Length = 22288

Score = 620 bits (1599), Expect = e-178
Identities = 309/336 (91%), Positives = 318/336 (94%)
Frame = +1

Query: 1 MYYPFVRKALFQLDPERAHEFTFQQLRRITGTPFEALVRQKVPAKPVNCMGLTFKNPLGL 60
MYYPFVRKALFQLDPERAHEFTFQQLRRITGTP EALVRQKVP KPV CMGLTFKNPLGL
Sbjct: 184 MYYPFVRKALFQLDPERAHEFTFQQLRRITGTPLEALVRQKVPTKPVTCMGLTFKNPLGL 363

Query: 61 AAGLDKDGECIDALGAMGFGSIEIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLGV 120
AAGLDKDGECIDALGAMGFGS+EIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLGV
Sbjct: 364 AAGLDKDGECIDALGAMGFGSLEIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLGV 543

Query: 121 DNLVENVKKAHYDGVLGINIGKNKDTPVEQGKDDYLICMEKXXXXXXXXXXNISSPNTPG 180
DNLVENVKKAH+DG+LGINIGKNKDTPVE GKDDYLICMEK NISSPNTPG
Sbjct: 544 DNLVENVKKAHFDGILGINIGKNKDTPVENGKDDYLICMEKVYAYAGYIAINISSPNTPG 723

Query: 181 LRTLQYGEALDDLLTAIKNKQNDLQAMHHKYVPIAVKIAPDLSEEELIQVADSLVRHNID 240
LRTLQYG+ALDDLLTAIKNKQNDLQA+HHKYVP+AVKIAPDL EEELIQVADSL+RHNID
Sbjct: 724 LRTLQYGDALDDLLTAIKNKQNDLQAIHHKYVPVAVKIAPDLCEEELIQVADSLLRHNID 903

Query: 241 GVIATNTTLDRSLVQGMKNCDQTGGLSGRPLQLKSTEIIRRLSLELNGRLPIIGVGGIDS 300
GVIATNTTLDRSLVQGMKNC QTGGLSGRPLQLKSTEIIRRLS EL G+LPIIGVGGIDS
Sbjct: 904 GVIATNTTLDRSLVQGMKNCQQTGGLSGRPLQLKSTEIIRRLSQELKGQLPIIGVGGIDS 1083

Query: 301 VIAAREKIAAGASLVQIYSGFIFKGPPLIKEIVTHI 336
VIAAREKIAAGA+LVQIYSGFIFKGPPLIKEIVTHI
Sbjct: 1084VIAAREKIAAGATLVQIYSGFIFKGPPLIKEIVTHI 1191


>embl|AE006098|AE006098 Pasteurella multocida subsp. multocida str.
Pm70 section 65 of 204 of the complete genome.
Length = 10687

Score = 399 bits (1026), Expect = e-112
Identities = 202/337 (59%), Positives = 246/337 (72%), Gaps = 3/337 (0%)
Frame = -3

Query: 3 YPFVRKALFQLDPERAHEFTFQQLRRITGTPFEALVRQKVPA---KPVNCMGLTFKNPLG 59
Y +RKALF LD E+AH+ T + L+ + +PF L++ P MGL FKNP+G
Sbjct: 5999 YALIRKALFSLDAEQAHDLTIKTLKTLGRSPFNPLLKTLFACPTGSPKTIMGLHFKNPIG 5820

Query: 60 LAAGLDKDGECIDALGAMGFGSIEIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLG 119
LAAG DK+GE I+ AMGFG IE+GTVTP Q GN KPR FRL +AEG+INR GFNN G
Sbjct: 5819 LAAGADKNGEAIEGFAAMGFGFIEVGTVTPLAQEGNPKPRQFRLPEAEGIINRNGFNNYG 5640

Query: 120 VDNLVENVKKAHYDGVLGINIGKNKDTPVEQGKDDYLICMEKXXXXXXXXXXNISSPNTP 179
+D L+ENVK A+YDG+LGINIGKN T VE GK DYLIC+ K NISSPN+P
Sbjct: 5639 IDYLIENVKHANYDGILGINIGKNTFTSVENGKADYLICLNKAYHYADYITINISSPNSP 5460

Query: 180 GLRTLQYGEALDDLLTAIKNKQNDLQAMHHKYVPIAVKIAPDLSEEELIQVADSLVRHNI 239
GLR LQYGEAL+DLL +K +Q DL + KYVPIAVKIAPDL+E E++Q+AD+L RH +
Sbjct: 5459 GLRQLQYGEALEDLLQGVKARQKDLAEQYQKYVPIAVKIAPDLTEGEVVQIADTLQRHKM 5280

Query: 240 DGVIATNTTLDRSLVQGMKNCDQTGGLSGRPLQLKSTEIIRRLSLELNGRLPIIGVGGID 299
D VIATNTT+ R V G++N +Q GGLSG+PLQ KSTEII RL EL G++PIIG GGID
Sbjct: 5279 DAVIATNTTISRDTVSGLQNAEQQGGLSGKPLQQKSTEIIARLHQELKGQIPIIGSGGID 5100

Query: 300 SVIAAREKIAAGASLVQIYSGFIFKGPPLIKEIVTHI 336
SV A+EKI AGA L+Q+YSG I+ GP LIK++V I
Sbjct: 5099 SVANAQEKIKAGAELLQLYSGLIYHGPHLIKQLVQQI 4989


>AE012280 AE008922 |AE012280| Xanthomonas campestris pv. campestris
str. ATCC 33913, section 188 of 460 of the complete
genome.
Length = 10801

Score = 310 bits (795), Expect = 3e-85
Identities = 173/335 (51%), Positives = 214/335 (63%), Gaps = 1/335 (0%)
Frame = -1

Query: 3 YPFVRKALFQLDPERAHEFTFQQLRRITGTPFEALVRQKVPAKPVNCMGLTFKNPLGLAA 62
Y R LF D ERAH + + T ALV + P GL F NP+GL A
Sbjct: 9544 YSLARPFLFAFDAERAHALALRAIDTAYRTGTTALVATRPVPLPTPAFGLMFPNPVGLGA 9365

Query: 63 GLDKDGECIDALGAMGFGSIEIGTVTPRPQPGNDKPRLFRLVDAEGLINRMGFNNLGVDN 122
GLDK+GE IDAL A+GFG +EIGTVTP+PQ GN KPR+FRL + + +INRMGFNNLGVD
Sbjct: 9364 GLDKNGEHIDALLALGFGFVEIGTVTPKPQEGNPKPRMFRLPEYQAVINRMGFNNLGVDV 9185

Query: 123 LVENVKKAHY-DGVLGINIGKNKDTPVEQGKDDYLICMEKXXXXXXXXXXNISSPNTPGL 181
LV+NV++A G+LGINIGKNKDTP E+ DY CME+ NISSPNT GL
Sbjct: 9184 LVKNVQRARRRGGLLGINIGKNKDTPNEEATSDYRYCMERVYPLADYITVNISSPNTAGL 9005

Query: 182 RTLQYGEALDDLLTAIKNKQNDLQAMHHKYVPIAVKIAPDLSEEELIQVADSLVRHNIDG 241
R LQ +AL L+ ++ Q L A H K VP+ VK+APDL++ ++ A L +DG
Sbjct: 9004 RELQEEQALRRLIADLRETQEALAAQHGKRVPMLVKVAPDLNDRDIDAAARVLADLAVDG 8825

Query: 242 VIATNTTLDRSLVQGMKNCDQTGGLSGRPLQLKSTEIIRRLSLELNGRLPIIGVGGIDSV 301
VIATNTT+ R+LV +Q GGLSG PL +ST ++RRL L +P+IGVGGI S
Sbjct: 8824 VIATNTTVTRTLVASHPMAEQAGGLSGAPLLGQSTLVLRRLRARLPESIPLIGVGGITSG 8645

Query: 302 IAAREKIAAGASLVQIYSGFIFKGPPLIKEIVTHI 336
A K+AAGASLVQ YSG +++GP LI E V I
Sbjct: 8644 ADAVAKMAAGASLVQCYSGLVYRGPRLIGECVDAI 8540


Database: all
Posted date: Nov 1, 2008 1:41 AM
Number of letters in database: 12,243,887
Number of sequences in database: 884

Lambda K H
0.319 0.140 0.405

Gapped
Lambda K H
0.267 0.0410 0.140


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 884
Number of Hits to DB: 4,242,491
Number of extensions: 60793
Number of successful extensions: 295
Number of sequences better than 1.0e-03: 3
Number of HSP's gapped: 293
Number of HSP's successfully gapped: 3
Length of query: 336
Length of database: 4,081,295
Length adjustment: 94
Effective length of query: 242
Effective length of database: 3,998,199
Effective search space: 967564158
Effective search space used: 967564158
Neighboring words threshold: 13
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 46 (22.3 bits)