BLASTP 2.2.26 [Sep-21-2011]
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= 026839
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From
Methanobacterium Thermoautotrophicum
Length = 208
Score = 101 bits (251), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 65/192 (33%), Positives = 101/192 (52%), Gaps = 6/192 (3%)
Query: 28 EEAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINR 87
EEAI ++ G ++ PTDT+YG +A +AV R++ +KGR P++ICV V +I R
Sbjct: 17 EEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPR 76
Query: 88 FAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGL 147
F+ L++ +LPGP TVVL R E + + G +G+RVPD R IA
Sbjct: 77 FSRPSGDAMELMERILPGPYTVVLERNEL--IPDVITGGSSRVGIRVPDDEICRRIAARF 134
Query: 148 ESALALTSANLTGQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKIL 207
+ TSAN++G+P S +++ + V D G STV+DLT + ++L
Sbjct: 135 --PVTATSANISGKPPSPRLEEIVRDLDAVDLVLDAGDC-LDMEPSTVIDLT-VNPPRVL 190
Query: 208 RPGSAKEETIAI 219
R G + + +
Sbjct: 191 RRGKGPLDPVLL 202
>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With
L-Threonine And Amppnp
Length = 352
Score = 75.5 bits (184), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 60/207 (28%), Positives = 101/207 (48%), Gaps = 10/207 (4%)
Query: 30 AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
A ++ G +A PT+T+YG +A A +I++ K R +PL + + D + + F
Sbjct: 20 AADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQL--FE 77
Query: 90 VTDHLPHGLLD---SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
V +P +L+ + PGP+T VL + E + K + GL+++ VR+P + R
Sbjct: 78 VAKDIPDKVLEIAQIVWPGPLTFVLKKTE--RVPKEVTAGLDTVAVRMPAHPIALQLIRE 135
Query: 147 LESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
+A SANL +PS +D +L R + DGG G ST++++T +
Sbjct: 136 SGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVIIDGGHTFFG-VESTIINVT-VEPPV 193
Query: 206 ILRPGSAKEETIAILEKHSLVEEPAAG 232
+LRPG E + L ++ E A G
Sbjct: 194 LLRPGPFTIEELKKLFGEIVIPEFAQG 220
>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From
Sulfolobus Tokodaii
pdb|4E1B|A Chain A, Re-Refinement Of Pdb Entry 2eqa - Sua5 Protein From
Sulfolobus Tokodaii With Bound
Threonylcarbamoyladenylate
Length = 352
Score = 74.7 bits (182), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 60/207 (28%), Positives = 100/207 (48%), Gaps = 10/207 (4%)
Query: 30 AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFA 89
A ++ G +A PT+T+YG +A A +I++ K R +PL + + D + + F
Sbjct: 20 AADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQL--FE 77
Query: 90 VTDHLPHGLLD---SLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
V +P +L+ + PGP+T VL + E + K + GL+++ VR P + R
Sbjct: 78 VAKDIPDKVLEIAQIVWPGPLTFVLKKTE--RVPKEVTAGLDTVAVRXPAHPIALQLIRE 135
Query: 147 LESALALTSANLTGQPSSVSVKD-FENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFK 205
+A SANL +PS +D +L R + DGG G ST++++T +
Sbjct: 136 SGVPIAAPSANLATRPSPTKAEDVIVDLNGRVDVIIDGGHTFFG-VESTIINVT-VEPPV 193
Query: 206 ILRPGSAKEETIAILEKHSLVEEPAAG 232
+LRPG E + L ++ E A G
Sbjct: 194 LLRPGPFTIEELKKLFGEIVIPEFAQG 220
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli
pdb|1HRU|B Chain B, The Structure Of The Yrdc Gene Product From E.Coli
Length = 188
Score = 59.3 bits (142), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 67/144 (46%), Gaps = 7/144 (4%)
Query: 30 AIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF- 88
AI L +VIA PT+ ++G CD S AV R+ E+K R L + + + +
Sbjct: 13 AIDVLNEERVIAYPTEAVFGVGCDPDSETAVXRLLELKQRPVDKGLILIAANYEQLKPYI 72
Query: 89 ---AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIAR 145
+TD + + S PGPVT V ++ + L +S+ VRV D V + +
Sbjct: 73 DDTXLTD-VQRETIFSRWPGPVTFVFPAPATT--PRWLTGRFDSLAVRVTDHPLVVALCQ 129
Query: 146 GLESALALTSANLTGQPSSVSVKD 169
L TSANL+G P +V +
Sbjct: 130 AYGKPLVSTSANLSGLPPCRTVDE 153
>pdb|1KK9|A Chain A, Crystal Structure Of E. Coli Ycio
Length = 221
Score = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 9/175 (5%)
Query: 29 EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
+A++ ++ G VI PTD+ Y C A RI I+ + D+S+++ +
Sbjct: 34 QAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTY 93
Query: 89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLE 148
+ D++ L + PG T +L +G + L ++IG RVP + + + L
Sbjct: 94 SFVDNVAFRLXKNNTPGNYTFIL-KGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALG 152
Query: 149 SALALTSANLTGQPSSVSVKDFENLWERCACVYD----GGVLPSGRAGSTVVDLT 199
TS L G S + D E + +R D GG L G+ +TV+DLT
Sbjct: 153 EPXLSTSLXLPG--SEFTESDPEEIKDRLEKQVDLIIHGGYL--GQKPTTVIDLT 203
>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1
Length = 206
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 78/175 (44%), Gaps = 9/175 (5%)
Query: 29 EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRF 88
+A++ ++ G VI PTD+ Y C A RI I+ + D+S+++ +
Sbjct: 19 QAVEIVRKGGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTY 78
Query: 89 AVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLE 148
+ D++ L + PG T +L +G + L ++IG RVP + + + L
Sbjct: 79 SFVDNVAFRLXKNNTPGNYTFIL-KGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALG 137
Query: 149 SALALTSANLTGQPSSVSVKDFENLWERCACVYD----GGVLPSGRAGSTVVDLT 199
TS L G S + D E + +R D GG L G+ +TV+DLT
Sbjct: 138 EPXLSTSLXLPG--SEFTESDPEEIKDRLEKQVDLIIHGGYL--GQKPTTVIDLT 188
>pdb|3VTH|A Chain A, Crystal Structure Of Full-Length Hypf In The Phosphate-
And Nucleotide-Bound Form
pdb|3VTH|B Chain B, Crystal Structure Of Full-Length Hypf In The Phosphate-
And Nucleotide-Bound Form
pdb|3VTI|A Chain A, Crystal Structure Of Hype-Hypf Complex
pdb|3VTI|B Chain B, Crystal Structure Of Hype-Hypf Complex
Length = 761
Score = 48.5 bits (114), Expect = 3e-06, Method: Composition-based stats.
Identities = 37/151 (24%), Positives = 75/151 (49%), Gaps = 7/151 (4%)
Query: 32 QALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKHTSPLAICVGDVSDINRFAVT 91
+ALK GK++A+ + A +A EAV + K +++ P A+ + DV ++ ++ +
Sbjct: 210 KALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRK-KRYGKPFAVMMRDVEEVKKYCIV 268
Query: 92 DHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
LL S P+ ++ +GE L K + L+++GV +P + ++ ++ +
Sbjct: 269 SPEEERLLLSQRR-PIVLLKKKGE--KLAKGIADDLDTLGVMLPYAPIHYLLMEEIDFPI 325
Query: 152 ALTSANLTGQPSSVSVKDFENLWERCACVYD 182
+TS N++ +P KD E E+ + D
Sbjct: 326 VMTSGNVSEEP---ICKDNEEALEKLKDIAD 353
>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And
Carbamoyl Phosphate
pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
Phosphate
pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
Phosphate
Length = 657
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 15/135 (11%)
Query: 35 KTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKH--TSPLAICVGDVSDINRFAVTD 92
K G ++A+ + ACDA +S AV ++ RKH PLA+ V D
Sbjct: 122 KMGNIVAIKGIGGFHLACDARNSNAVA---TLRARKHRPAKPLAV---------MLPVAD 169
Query: 93 HLPHGLLDSLL-PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
LP L P V++ + L + PGL +GV +P + ++ + L+ L
Sbjct: 170 GLPDAARQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPL 229
Query: 152 ALTSANLTGQPSSVS 166
+TS NL+G+P ++S
Sbjct: 230 VMTSGNLSGKPPAIS 244
>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
Phosphate
pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And
Carbamoyl Phosphate
Length = 658
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 39/135 (28%), Positives = 63/135 (46%), Gaps = 15/135 (11%)
Query: 35 KTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGRKH--TSPLAICVGDVSDINRFAVTD 92
K G ++A+ + ACDA +S AV ++ RKH PLA+ V D
Sbjct: 122 KMGNIVAIKGIGGFHLACDARNSNAVA---TLRARKHRPAKPLAV---------MLPVAD 169
Query: 93 HLPHGLLDSLL-PGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARGLESAL 151
LP L P V++ + L + PGL +GV +P + ++ + L+ L
Sbjct: 170 GLPDAARQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPL 229
Query: 152 ALTSANLTGQPSSVS 166
+TS NL+G+P ++S
Sbjct: 230 VMTSGNLSGKPPAIS 244
>pdb|4G9I|A Chain A, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|B Chain B, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|C Chain C, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|D Chain D, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|E Chain E, Crystal Structure Of T.Kodakarensis Hypf
pdb|4G9I|F Chain F, Crystal Structure Of T.Kodakarensis Hypf
Length = 772
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 51/187 (27%), Positives = 83/187 (44%), Gaps = 16/187 (8%)
Query: 29 EAIQALKTGKVIAVPTDTLYGFACDACSSEAVNRIYEIKGR--KHTSPLAICVGDVSDIN 86
+A + + G ++A+ ACDA + E V E++ R + P AI D+ +
Sbjct: 205 KAAELIDKGYIVAIKGIGGIHLACDAANEEVVA---ELRRRTFRPQKPFAIXAKDIETVK 261
Query: 87 RFAVTDHLPHGLLDSLLPGPVTVVLSRGESSNLEKSLNPGLESIGVRVPDSNFVRVIARG 146
FA L S +T L + E L ++L PGL +IGV +P + ++
Sbjct: 262 SFAYVSPEEEEELTSYRRPIIT--LRKKEPFPLPENLAPGLHTIGVXLPYAGTHYILFHW 319
Query: 147 LESALAL-TSANLTGQPSSVSVKDFENLWERCACVYDGGVLPS----GRAGSTVVDLTRL 201
++ + + TSAN G P VKD E +E V D +L + RA +V+
Sbjct: 320 SKTPVYVXTSANYPGXP---XVKDNERAFEELKDVADYFLLHNRKILNRADDSVIRFVD- 375
Query: 202 GKFKILR 208
GK ++R
Sbjct: 376 GKRAVIR 382
>pdb|1OY0|A Chain A, The Crystal Structure Of The First Enzyme Of Pantothenate
Biosynthetic Pathway, Ketopantoate
Hydroxymethyltransferase From Mycobacterium Tuberculosis
Shows A Decameric Assembly And Terminal Helix-Swapping
pdb|1OY0|B Chain B, The Crystal Structure Of The First Enzyme Of Pantothenate
Biosynthetic Pathway, Ketopantoate
Hydroxymethyltransferase From Mycobacterium Tuberculosis
Shows A Decameric Assembly And Terminal Helix-Swapping
pdb|1OY0|C Chain C, The Crystal Structure Of The First Enzyme Of Pantothenate
Biosynthetic Pathway, Ketopantoate
Hydroxymethyltransferase From Mycobacterium Tuberculosis
Shows A Decameric Assembly And Terminal Helix-Swapping
pdb|1OY0|D Chain D, The Crystal Structure Of The First Enzyme Of Pantothenate
Biosynthetic Pathway, Ketopantoate
Hydroxymethyltransferase From Mycobacterium Tuberculosis
Shows A Decameric Assembly And Terminal Helix-Swapping
pdb|1OY0|E Chain E, The Crystal Structure Of The First Enzyme Of Pantothenate
Biosynthetic Pathway, Ketopantoate
Hydroxymethyltransferase From Mycobacterium Tuberculosis
Shows A Decameric Assembly And Terminal Helix-Swapping
Length = 281
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 29/59 (49%)
Query: 160 GQPSSVSVKDFENLWERCACVYDGGVLPSGRAGSTVVDLTRLGKFKILRPGSAKEETIA 218
G +V ++ E + E+ AC+ G+ G T + LG F++ G A E+TIA
Sbjct: 125 GGAHAVKLEGGERVAEQIACLTAAGIPVMAHIGFTPQSVNTLGGFRVQGRGDAAEQTIA 183
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.315 0.132 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,677,143
Number of Sequences: 62578
Number of extensions: 260111
Number of successful extensions: 515
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 496
Number of HSP's gapped (non-prelim): 15
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)