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= 010322
(513 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GPJ|A Chain A, Glutamyl-Trna Reductase From Methanopyrus Kandleri
Length = 404
Score = 116 bits (290), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 96/337 (28%), Positives = 159/337 (47%), Gaps = 36/337 (10%)
Query: 65 IVVIGLSVHTAPVEMREKLAIPEAEWPRAIGELCNLNHIEEAAVLSTCNRMEIYVVALSQ 124
+V +G++ A VE EK E R I E L+ + +L T NR+E+Y
Sbjct: 4 LVSVGITHKEAEVEELEKARFESDEAVRDIVESFGLSG---SVLLQTSNRVEVYA----- 55
Query: 125 HRGVKEVTEWMSKTSGIPVAELCEHRFLLYNKDATQHLFEVSAGLDSLVLGEGQILAXXX 184
G ++ E + + + ++ +A +HLF V++GL+S+++GE +IL
Sbjct: 56 -SGARDRAEELGDL-------IHDDAWVKRGSEAVRHLFRVASGLESMMVGEQEILRQVK 107
Query: 185 XXXXXXXXXXXFGRNISGLFKHAISVGKRVRTETNIXXXXXXXXXXXXELALMKLPESSH 244
+ +F+ AI++GKR R ET I ELA +L
Sbjct: 108 KAYDRAARLGTLDEALKIVFRRAINLGKRAREETRISEGAVSIGSAAVELAERELGSLHD 167
Query: 245 ATARMLVIGAGKMGKLVIKHLVAKGCTKMVVVNRSEERVAAICEELNGVEIIYKPLSEML 304
T +LV+GAG+MGK V K LV +G ++V NR+ ER + +L G + + L + L
Sbjct: 168 KT--VLVVGAGEMGKTVAKSLVDRGVRAVLVANRTYERAVELARDLGGEAVRFDELVDHL 225
Query: 305 SCAADADVVFTSTASEAPLFLKDHVQDL-------PPVEAAVGGLRLFIDISVPRNVGSC 357
A +DVV ++TA+ P+ D V++ P+ L IDI+ PR+V
Sbjct: 226 ---ARSDVVVSATAAPHPVIHVDDVREALRKRDRRSPI--------LIIDIANPRDVEEG 274
Query: 358 VADVETARVYNVDDLKEVVAANKEDRLRKAMEAQAII 394
V ++E V +DDL+ + N E R ++ + + +I
Sbjct: 275 VENIEDVEVRTIDDLRVIARENLERRRKEIPKVEKLI 311
>pdb|3TUM|A Chain A, 2.15 Angstrom Resolution Crystal Structure Of A Shikimate
Dehydrogenase Family Protein From Pseudomonas Putida
Kt2440 In Complex With Nad+
pdb|3TUM|B Chain B, 2.15 Angstrom Resolution Crystal Structure Of A Shikimate
Dehydrogenase Family Protein From Pseudomonas Putida
Kt2440 In Complex With Nad+
Length = 269
Score = 33.9 bits (76), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 245 ATARMLVIGAGKMGKLVIKHLVAKGCTKMVVVNRSEERVAAICEEL-NG-----VEIIYK 298
A R LVIG G +G + L G + + + S R+ A+CE L NG V +
Sbjct: 124 AGKRALVIGCGGVGSAIAYALAEAGIASITLCDPSTARMGAVCELLGNGFPGLTVSTQFS 183
Query: 299 PLSEMLSCAADADVVFTSTASEAPL 323
L E A+A V T +E PL
Sbjct: 184 GL-EDFDLVANASPVGMGTRAELPL 207
>pdb|2G17|A Chain A, The Structure Of N-Acetyl-Gamma-Glutamyl-Phosphate
Reductase From Salmonella Typhimurium
Length = 337
Score = 32.0 bits (71), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 13/97 (13%)
Query: 243 SHATARMLVIGA-GKMGKLVIK------HLVAKGCTKMVVVNRSEERVAAICEELNG-VE 294
S+A L++GA G G ++ H T N + + ++ + +L G V+
Sbjct: 1 SNAXLNTLIVGASGYAGAELVSYVNRHPHXTITALTVSAQSNDAGKLISDLHPQLKGIVD 60
Query: 295 IIYKPLSEMLSCAADADVVFTSTASE-----APLFLK 326
+ +P S++ +AD DVVF +TA E AP FL+
Sbjct: 61 LPLQPXSDVRDFSADVDVVFLATAHEVSHDLAPQFLQ 97
>pdb|1WP4|A Chain A, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|B Chain B, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|C Chain C, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
pdb|1WP4|D Chain D, Structure Of Tt368 Protein From Thermus Thermophilus Hb8
Length = 289
Score = 31.6 bits (70), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 36/93 (38%), Gaps = 13/93 (13%)
Query: 65 IVVIGLSVHTAPVEMREKLAIPEAEWPRAI-----------GELCNLNHIEEAAVLSTC- 112
+ IGL P+ P W R E L + EA V+ TC
Sbjct: 4 VAFIGLGAMGYPMAGHLARRFPTLVWNRTFEKALRHQEEFGSEAVPLERVAEARVIFTCL 63
Query: 113 -NRMEIYVVALSQHRGVKEVTEWMSKTSGIPVA 144
E+Y VA + + ++E T W+ TSG P A
Sbjct: 64 PTTREVYEVAEALYPYLREGTYWVDATSGEPEA 96
>pdb|2CVZ|A Chain A, Structure Of Hydroxyisobutyrate Dehydrogenase From Thermus
Thermophilus Hb8
pdb|2CVZ|B Chain B, Structure Of Hydroxyisobutyrate Dehydrogenase From Thermus
Thermophilus Hb8
pdb|2CVZ|C Chain C, Structure Of Hydroxyisobutyrate Dehydrogenase From Thermus
Thermophilus Hb8
pdb|2CVZ|D Chain D, Structure Of Hydroxyisobutyrate Dehydrogenase From Thermus
Thermophilus Hb8
Length = 289
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/51 (37%), Positives = 27/51 (52%), Gaps = 2/51 (3%)
Query: 96 ELCNLNHIEEAAVLSTC--NRMEIYVVALSQHRGVKEVTEWMSKTSGIPVA 144
E L + EA V+ TC E+Y VA + + ++E T W+ TSG P A
Sbjct: 46 EAVPLERVAEARVIFTCLPTTREVYEVAEALYPYLREGTYWVDATSGEPEA 96
>pdb|3PEF|A Chain A, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|B Chain B, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|C Chain C, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|D Chain D, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|E Chain E, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|F Chain F, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|G Chain G, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
pdb|3PEF|H Chain H, Crystal Structure Of Gamma-Hydroxybutyrate Dehydrogenase
From Geobacter Metallireducens In Complex With Nadp+
Length = 287
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 46/100 (46%), Gaps = 13/100 (13%)
Query: 252 IGAGKMGKLVIKHLVAKGCTKMVVVNRSEERVAAICEELN--GVEIIYKPLSEMLSCAAD 309
IG G MG + K+LV GC+ + + NRS E+ EEL G E P + SC
Sbjct: 7 IGLGIMGSAMAKNLVKAGCS-VTIWNRSPEK----AEELAALGAERAATPXEVVESCPVT 61
Query: 310 ADVVFTSTASEAPLFLKDHVQDLPPVEAAVGGLRLFIDIS 349
++ A+E F K V + +G R ++D+S
Sbjct: 62 FAMLADPAAAEEVCFGKHGVLE------GIGEGRGYVDMS 95
>pdb|3OJ0|A Chain A, Crystal Structure Of Glutamyl-Trna Reductase From
Thermoplasma Volcanium (Nucleotide Binding Domain)
Length = 144
Score = 30.4 bits (67), Expect = 2.3, Method: Composition-based stats.
Identities = 31/139 (22%), Positives = 63/139 (45%), Gaps = 20/139 (14%)
Query: 248 RMLVIGAGKMGKLVIKHLVAKGCTKMVVVNRSEERVAAICEELNGVEIIYKPLSEMLSCA 307
++L++G G + + + + K+ V R+ + V A E+ E Y ++++ S
Sbjct: 23 KILLVGNGXLASEIAPYF-SYPQYKVTVAGRNIDHVRAFAEKY---EYEYVLINDIDSLI 78
Query: 308 ADADVVFTSTASEAPLFLKDHVQDLPPVEAAVGGLRLFIDISVPRNVGSCVADVETARVY 367
+ DV+ T+T+S+ P+ E ++ +LFID+ P N+ V
Sbjct: 79 KNNDVIITATSSKTPIV----------EERSLXPGKLFIDLGNPPNIE------RGNNVI 122
Query: 368 NVDDLKEVVAANKEDRLRK 386
+D++ E+ N+ R K
Sbjct: 123 TLDEIYEISKKNEXLREEK 141
>pdb|3A5C|G Chain G, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5C|O Chain O, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|G Chain G, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3A5D|O Chain O, Inter-Subunit Interaction And Quaternary Rearrangement
Defined By The Central Stalk Of Prokaryotic V1-Atpase
pdb|3J0J|G Chain G, Fitted Atomic Models Of Thermus Thermophilus V-Atpase
Subunits Into Cryo-Em Map
Length = 223
Score = 29.6 bits (65), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/38 (44%), Positives = 23/38 (60%), Gaps = 1/38 (2%)
Query: 410 TVPTIKKLRAYAER-IRVAELDKCLSKMGDDISKKTRR 446
T+ + R YAE IRVA + L K+G++I K TRR
Sbjct: 123 TLEASRAFRRYAEALIRVANTETRLKKIGEEIKKTTRR 160
>pdb|3KRT|A Chain A, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|B Chain B, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|C Chain C, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
pdb|3KRT|D Chain D, Crystal Structure Of Putative Crotonyl Coa Reductase From
Streptomyces Coelicolor A3(2)
Length = 456
Score = 29.3 bits (64), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 15/51 (29%), Positives = 30/51 (58%), Gaps = 2/51 (3%)
Query: 375 VVAANKEDRLRKAMEAQAIITEESKQFAAWRDSLETVPTIKKLRAYAERIR 425
VV++ ++ + +AM A+AII ++ + W+D E K+ + + +RIR
Sbjct: 259 VVSSPQKAEICRAMGAEAIIDRNAEGYRFWKD--ENTQDPKEWKRFGKRIR 307
>pdb|3DR3|A Chain A, Structure Of Idp00107, A Potential N-Acetyl-Gamma-
Glutamylphosphate Reductase From Shigella Flexneri
Length = 337
Score = 29.3 bits (64), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 47/97 (48%), Gaps = 13/97 (13%)
Query: 243 SHATARMLVIGA-GKMGKLVI------KHLVAKGCTKMVVVNRSEERVAAICEELNG-VE 294
S+A L++GA G G ++ H+ T N + + ++ + +L G VE
Sbjct: 1 SNAMLNTLIVGASGYAGAELVTYVNRHPHMNITALTVSAQSNDAGKLISDLHPQLKGIVE 60
Query: 295 IIYKPLSEMLSCAADADVVFTSTASE-----APLFLK 326
+ +P+S++ + DVVF +TA E AP FL+
Sbjct: 61 LPLQPMSDISEFSPGVDVVFLATAHEVSHDLAPQFLE 97
>pdb|2V6B|A Chain A, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|B Chain B, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|C Chain C, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
pdb|2V6B|D Chain D, Crystal Structure Of Lactate Dehydrogenase From
Deinococcus Radiodurans (Apo Form)
Length = 304
Score = 28.9 bits (63), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 38/67 (56%), Gaps = 13/67 (19%)
Query: 265 LVAKG-CTKMVVVNRSEERVAAICEEL-------NGVEIIYKPLSEMLSCAADADVV-FT 315
LV +G C+++V+V+R E+R A E++ +G + + SE+ ADA VV T
Sbjct: 19 LVLRGSCSELVLVDRDEDRAQAEAEDIAHAAPVSHGTRVWHGGHSEL----ADAQVVILT 74
Query: 316 STASEAP 322
+ A++ P
Sbjct: 75 AGANQKP 81
>pdb|3CIF|A Chain A, Crystal Structure Of C153s Mutant Glyceraldehyde
3-Phosphate Dehydrogenase From Cryptosporidium Parvum
pdb|3CIF|B Chain B, Crystal Structure Of C153s Mutant Glyceraldehyde
3-Phosphate Dehydrogenase From Cryptosporidium Parvum
pdb|3CIF|C Chain C, Crystal Structure Of C153s Mutant Glyceraldehyde
3-Phosphate Dehydrogenase From Cryptosporidium Parvum
pdb|3CIF|D Chain D, Crystal Structure Of C153s Mutant Glyceraldehyde
3-Phosphate Dehydrogenase From Cryptosporidium Parvum
Length = 359
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 239 LPESSHATARMLVIGAGKMGKLVIKHLVAKGCTKMVVVN 277
+P SH TA + + G G++G+LV++ + + +V +N
Sbjct: 15 VPRGSHMTATLGINGFGRIGRLVLRACMERNDITVVAIN 53
>pdb|1VSU|A Chain A, Crystal Structure Of Apo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSU|B Chain B, Crystal Structure Of Apo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSU|C Chain C, Crystal Structure Of Apo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSU|D Chain D, Crystal Structure Of Apo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSV|A Chain A, Crystal Structure Of Holo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSV|B Chain B, Crystal Structure Of Holo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSV|C Chain C, Crystal Structure Of Holo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
pdb|1VSV|D Chain D, Crystal Structure Of Holo-Glyceraldehyde 3-Phosphate
Dehydrogenase From Cryptosporidium Parvum
Length = 359
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 24/39 (61%)
Query: 239 LPESSHATARMLVIGAGKMGKLVIKHLVAKGCTKMVVVN 277
+P SH TA + + G G++G+LV++ + + +V +N
Sbjct: 15 VPRGSHMTATLGINGFGRIGRLVLRACMERNDITVVAIN 53
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
0.318 0.131 0.369
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,556,670
Number of Sequences: 62578
Number of extensions: 454065
Number of successful extensions: 1266
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 16
Number of HSP's that attempted gapping in prelim test: 1256
Number of HSP's gapped (non-prelim): 22
length of query: 513
length of database: 14,973,337
effective HSP length: 103
effective length of query: 410
effective length of database: 8,527,803
effective search space: 3496399230
effective search space used: 3496399230
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)