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= 040627
(267 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1EBF|A Chain A, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBF|B Chain B, Homoserine Dehydrogenase From S. Cerevisiae Complex With
Nad+
pdb|1EBU|A Chain A, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|B Chain B, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|C Chain C, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1EBU|D Chain D, Homoserine Dehydrogenase Complex With Nad Analogue And L-
Homoserine
pdb|1TVE|A Chain A, Homoserine Dehydrogenase In Complex With 4-(4-Hydroxy-3-
Isopropylphenylthio)-2-Isopropylphenol
pdb|1TVE|B Chain B, Homoserine Dehydrogenase In Complex With 4-(4-Hydroxy-3-
Isopropylphenylthio)-2-Isopropylphenol
Length = 358
Score = 156 bits (394), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 97/269 (36%), Positives = 152/269 (56%), Gaps = 13/269 (4%)
Query: 4 VDCSASSETVEILTQAVDLGCCIVLANKKPLTSTKEDYDKLVS-RPRR--IRYESTVGAG 60
VD ++S+ T+ V+ G I NKK +S + L S +P + +E+TVGAG
Sbjct: 89 VDNTSSAYIAGFYTKFVENGISIATPNKKAFSSDLATWKALFSNKPTNGFVYHEATVGAG 148
Query: 61 LPVIASLNRILSSGDPVHRIVGSLSGTLGYVMSEVEDGKP----LSQVVKAAKSLGYTEP 116
LP+I+ L I+ +GD V +I G SGTL Y+ +E + S VVK AK LGYTEP
Sbjct: 149 LPIISFLREIIQTGDEVEKIEGIFSGTLSYIFNEFSTSQANDVKFSDVVKVAKKLGYTEP 208
Query: 117 DPRDDLSGMDVARKALILARLLGMRI-NIDSIKIESLYPEEMGPNIMSVEDFLSTGLPLL 175
DPRDDL+G+DVARK I+ R+ G+ + + S ++SL P+ + ++ S ++FL L
Sbjct: 209 DPRDDLNGLDVARKVTIVGRISGVEVESPTSFPVQSLIPKPL-ESVKSADEFLEK-LSDY 266
Query: 176 DNDIGERVRKASLNGNVLRYVCVIE--GSRCTVGIQELPKNSPLGRLRGSDNVLEIYSRC 233
D D+ + ++A+ VLR++ ++ +VGI++ + P L+GSDNV+ I ++
Sbjct: 267 DKDLTQLKKEAATENKVLRFIGKVDVATKSVSVGIEKYDYSHPFASLKGSDNVISIKTKR 326
Query: 234 YSEQPLVIQXXXXXXXXXXXXVLADILDI 262
Y+ P+VIQ VL D++ I
Sbjct: 327 YT-NPVVIQGAGAGAAVTAAGVLGDVIKI 354
>pdb|1Q7G|A Chain A, Homoserine Dehydrogenase In Complex With Suicide Inhibitor
Complex Nad-5-Hydroxy-4-Oxonorvaline
pdb|1Q7G|B Chain B, Homoserine Dehydrogenase In Complex With Suicide Inhibitor
Complex Nad-5-Hydroxy-4-Oxonorvaline
Length = 359
Score = 156 bits (394), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 97/269 (36%), Positives = 152/269 (56%), Gaps = 13/269 (4%)
Query: 4 VDCSASSETVEILTQAVDLGCCIVLANKKPLTSTKEDYDKLVS-RPRR--IRYESTVGAG 60
VD ++S+ T+ V+ G I NKK +S + L S +P + +E+TVGAG
Sbjct: 90 VDNTSSAYIAGFYTKFVENGISIATPNKKAFSSDLATWKALFSNKPTNGFVYHEATVGAG 149
Query: 61 LPVIASLNRILSSGDPVHRIVGSLSGTLGYVMSEVEDGKP----LSQVVKAAKSLGYTEP 116
LP+I+ L I+ +GD V +I G SGTL Y+ +E + S VVK AK LGYTEP
Sbjct: 150 LPIISFLREIIQTGDEVEKIEGIFSGTLSYIFNEFSTSQANDVKFSDVVKVAKKLGYTEP 209
Query: 117 DPRDDLSGMDVARKALILARLLGMRI-NIDSIKIESLYPEEMGPNIMSVEDFLSTGLPLL 175
DPRDDL+G+DVARK I+ R+ G+ + + S ++SL P+ + ++ S ++FL L
Sbjct: 210 DPRDDLNGLDVARKVTIVGRISGVEVESPTSFPVQSLIPKPL-ESVKSADEFLEK-LSDY 267
Query: 176 DNDIGERVRKASLNGNVLRYVCVIE--GSRCTVGIQELPKNSPLGRLRGSDNVLEIYSRC 233
D D+ + ++A+ VLR++ ++ +VGI++ + P L+GSDNV+ I ++
Sbjct: 268 DKDLTQLKKEAATENKVLRFIGKVDVATKSVSVGIEKYDYSHPFASLKGSDNVISIKTKR 327
Query: 234 YSEQPLVIQXXXXXXXXXXXXVLADILDI 262
Y+ P+VIQ VL D++ I
Sbjct: 328 YT-NPVVIQGAGAGAAVTAAGVLGDVIKI 355
>pdb|2EJW|A Chain A, Homoserine Dehydrogenase From Thermus Thermophilus Hb8
pdb|2EJW|B Chain B, Homoserine Dehydrogenase From Thermus Thermophilus Hb8
pdb|2EJW|E Chain E, Homoserine Dehydrogenase From Thermus Thermophilus Hb8
pdb|2EJW|F Chain F, Homoserine Dehydrogenase From Thermus Thermophilus Hb8
Length = 332
Score = 77.4 bits (189), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 65/219 (29%), Positives = 103/219 (47%), Gaps = 25/219 (11%)
Query: 19 AVDLGCCIVLANKKPLTSTKEDYDKLVSRPRRIRYESTVGAGLPVIASLNRILSSGDPVH 78
A++ G ++ ANK L E I +E++V AG P ++ L + G +
Sbjct: 87 ALEAGIPLITANKALLAEAWESLRPFAEE-GLIYHEASVMAGTPALSFLETL--RGSELL 143
Query: 79 RIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRDDLSGMDVARKALILARLL 138
+ G L+GT Y++ E+E G+ ++ + A+ LGY E DP D+ G+D A K +LARLL
Sbjct: 144 ELHGILNGTTLYILQEMEKGRTYAEALLEAQRLGYAEADPTLDVEGIDAAHKLTLLARLL 203
Query: 139 GMRINIDSIKIESLYPEEMGPNIMSVEDFLSTGLPLLDNDIGERVR-KASLNGNVLRYVC 197
+ ++E+ + P ++ + GERVR ASL G R+
Sbjct: 204 -VDPGFPFAEVEAQGIARLTPEVLQKAE-----------ARGERVRLVASLFGEGGRW-- 249
Query: 198 VIEGSRCTVGIQELPKNSPLGRLRGSDNVLEIYSRCYSE 236
R V + LP++ PL R RG N L + +R E
Sbjct: 250 -----RAAVAPRRLPQDHPLARARG--NALWVRARPLGE 281
>pdb|3DO5|A Chain A, Crystal Structure Of Putative Homoserine Dehydrogenase
(Np_069768.1) From Archaeoglobus Fulgidus At 2.20 A
Resolution
Length = 327
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 44/144 (30%), Positives = 78/144 (54%), Gaps = 3/144 (2%)
Query: 11 ETVEILTQAVDLGCCIVLANKKPLTSTKEDYDKLVSRPR-RIRYESTVGAGLPVIASLNR 69
E V + +A+ G +V +NK PL + L R R+ YE+TVG PV+ R
Sbjct: 96 EGVNYIREALKRGKHVVTSNKGPLVAEFHGLXSLAERNGVRLXYEATVGGAXPVVKLAKR 155
Query: 70 ILSSGDPVHRIVGSLSGTLGYVMSEVEDGK-PLSQVVKAAKSLGYTEPDPRDDLSGMDVA 128
L+ + + + G +GT Y++S E+ + P ++K A+ LGY E DP D+ G+D A
Sbjct: 156 YLALCE-IESVKGIFNGTCNYILSRXEEERLPYEHILKEAQELGYAEADPSYDVEGIDAA 214
Query: 129 RKALILARLLGMRINIDSIKIESL 152
K +I+A +G++ + + +++ +
Sbjct: 215 LKLVIIANTIGVKASYEDVEVTGI 238
>pdb|3ING|A Chain A, Crystal Structure Of Homoserine Dehydrogenase
(Np_394635.1) From Thermoplasma Acidophilum At 1.95 A
Resolution
Length = 325
Score = 75.1 bits (183), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 52/165 (31%), Positives = 81/165 (49%), Gaps = 9/165 (5%)
Query: 3 FVDCSASSE----TVEILTQAVDLGCCIVLANKKPLTSTKED-YDKLVSRPRRIRYESTV 57
VDC+ +S + A + G +V ANK L + D D + IRYE+TV
Sbjct: 86 LVDCTPASRDGVREYSLYRXAFESGXNVVTANKSGLANKWHDIXDSANQNSKYIRYEATV 145
Query: 58 GAGLPVIASLN-RILSSGDPVHRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEP 116
G+P+ + L+ IL S V R G +S T+ YV+ +G+ L VV A G E
Sbjct: 146 AGGVPLFSVLDYSILPS--KVKRFRGIVSSTINYVIRNXANGRSLRDVVDDAIKKGIAES 203
Query: 117 DPRDDLSGMDVARKALILA-RLLGMRINIDSIKIESLYPEEMGPN 160
+P+DDL+G+D ARK++IL + G ++ ++ + N
Sbjct: 204 NPQDDLNGLDAARKSVILVNHIFGTEYTLNDVEYSGVDERSYNAN 248
>pdb|3MTJ|A Chain A, The Crystal Structure Of A Homoserine Dehydrogenase From
Thiobacillus Denitrificans To 2.15a
Length = 444
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 80/160 (50%), Gaps = 13/160 (8%)
Query: 14 EILTQAVDLGCCIVLANKKPLTST-KEDYDKLVSRPRRIRYESTVGAGLPVIASLNRILS 72
E++ QA+ G +V ANK + E + ++ + +E+ V G+P+I +L L+
Sbjct: 94 ELVXQAIANGKHVVTANKHLVAKYGNEIFAAAQAKGVXVTFEAAVAGGIPIIKALREGLT 153
Query: 73 SGDPVHRIVGSLSGTLGYVMSEVED-GKPLSQVVKAAKSLGYTEPDPRDDLSGMDVARKA 131
+ + + + G ++GT +++SE D G V+K A+ LGY E DP D+ G+D A K
Sbjct: 154 A-NRIEWLAGIINGTSNFILSEXRDKGAAFDDVLKEAQRLGYAEADPTFDIEGIDAAHKL 212
Query: 132 LILARL-LGMRINIDSIKIESL---------YPEEMGPNI 161
IL+ + G+ + E + Y EE+G I
Sbjct: 213 TILSAIAFGIPXQFERAYTEGISQLTREDVRYAEELGYRI 252
>pdb|3JSA|A Chain A, Homoserine Dehydrogenase From Thermoplasma Volcanium
Complexed With Nad
Length = 328
Score = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 68/123 (55%), Gaps = 4/123 (3%)
Query: 18 QAVDLGCCIVLANKKPLTSTKEDYDKLV-SRPRRIRYESTVGAGLPVIASLN-RILSSGD 75
+ + G +V ANK L + + + S RRIRYE+TV G+P+ + ++ +L S
Sbjct: 106 ETFENGKDVVTANKSGLANFWPEIXEYARSNNRRIRYEATVAGGVPLFSFIDYSVLPS-- 163
Query: 76 PVHRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRDDLSGMDVARKALILA 135
+ + G +S T+ Y + E+ + + V+ A LG E + +DDL+G+D ARK++IL
Sbjct: 164 RIKKFRGIVSLTINYFIRELANKREFDDVLSEATKLGIVEKNYKDDLTGLDAARKSVILC 223
Query: 136 RLL 138
L
Sbjct: 224 NHL 226
>pdb|3C8M|A Chain A, Crystal Structure Of Homoserine Dehydrogenase From
Thermoplasma Volcanium
Length = 331
Score = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 40/123 (32%), Positives = 68/123 (55%), Gaps = 4/123 (3%)
Query: 18 QAVDLGCCIVLANKKPLTSTKEDYDKLV-SRPRRIRYESTVGAGLPVIASLN-RILSSGD 75
+ + G +V ANK L + + + S RRIRYE+TV G+P+ + ++ +L S
Sbjct: 109 ETFENGKDVVTANKSGLANFWPEIXEYARSNNRRIRYEATVAGGVPLFSFIDYSVLPS-- 166
Query: 76 PVHRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRDDLSGMDVARKALILA 135
+ + G +S T+ Y + E+ + + V+ A LG E + +DDL+G+D ARK++IL
Sbjct: 167 RIKKFRGIVSLTINYFIRELANKREFDDVLSEATKLGIVEKNYKDDLTGLDAARKSVILC 226
Query: 136 RLL 138
L
Sbjct: 227 NHL 229
>pdb|4FZ2|A Chain A, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
pdb|4FZ2|B Chain B, Crystal Structure Of The Fourth Type Of Archaeal Trna
Splicing Endonuclease From Candidatus Micrarchaeum
Acidiphilum Arman-2
Length = 395
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 31/53 (58%), Gaps = 1/53 (1%)
Query: 89 GYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRDDLSGMDVARKALILARLLGMR 141
G +M EVE+G L V KAA + ++P +D++G+ + RK L +AR +
Sbjct: 36 GKLMLEVEEGLYLVDVRKAACTDENSKPVSFNDIAGVFIKRKKL-MARYFTFK 87
>pdb|3RRX|A Chain A, Crystal Structure Of Q683a Mutant Of
Exo-1,31,4-Beta-Glucanase (Exop) From Pseudoalteromonas
Sp. Bb1
Length = 822
Score = 29.3 bits (64), Expect = 2.5, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 72 SSGDPVHRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRD 120
+SGD ++ S++ +S EDG+ + +AA SL Y EP P D
Sbjct: 667 TSGDKQSLLMQSVN------LSYAEDGRGFNWRAQAALSLSYLEPTPLD 709
>pdb|3USZ|A Chain A, Crystal Structure Of Truncated Exo-1,31,4-Beta-Glucanase
(Exop) From Pseudoalteromonas Sp. Bb1
pdb|3UT0|A Chain A, Crystal Structure Of Exo-1,31,4-Beta-Glucanase (Exop) From
Pseudoalteromonas Sp. Bb1
pdb|3UT0|B Chain B, Crystal Structure Of Exo-1,31,4-Beta-Glucanase (Exop) From
Pseudoalteromonas Sp. Bb1
pdb|3UT0|C Chain C, Crystal Structure Of Exo-1,31,4-Beta-Glucanase (Exop) From
Pseudoalteromonas Sp. Bb1
pdb|3UT0|D Chain D, Crystal Structure Of Exo-1,31,4-Beta-Glucanase (Exop) From
Pseudoalteromonas Sp. Bb1
Length = 822
Score = 28.5 bits (62), Expect = 4.5, Method: Composition-based stats.
Identities = 17/49 (34%), Positives = 26/49 (53%), Gaps = 6/49 (12%)
Query: 72 SSGDPVHRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPRD 120
+SGD ++ S++ +S EDG+ + +AA SL Y EP P D
Sbjct: 667 TSGDKQSLLMQSVN------LSYQEDGRGFNWRAQAALSLSYLEPTPLD 709
>pdb|3F95|A Chain A, Crystal Structure Of Extra C-Terminal Domain (X) Of
Exo-1,31,4-Beta- Glucanase (Exop) From Pseudoalteromonas
Sp. Bb1
pdb|3F95|B Chain B, Crystal Structure Of Extra C-Terminal Domain (X) Of
Exo-1,31,4-Beta- Glucanase (Exop) From Pseudoalteromonas
Sp. Bb1
Length = 193
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 92 MSEVEDGKPLSQVVKAAKSLGYTEPDPRD 120
+S EDG+ + +AA SL Y EP P D
Sbjct: 52 LSYQEDGRGFNWRAQAALSLSYLEPTPLD 80
>pdb|3NZR|A Chain A, Crystal Structure Of 2-Dehydro-3-Deoxyphosphogluconate
Aldolase From Vibrio Fischeri Es114
pdb|3NZR|B Chain B, Crystal Structure Of 2-Dehydro-3-Deoxyphosphogluconate
Aldolase From Vibrio Fischeri Es114
pdb|3NZR|C Chain C, Crystal Structure Of 2-Dehydro-3-Deoxyphosphogluconate
Aldolase From Vibrio Fischeri Es114
pdb|3NZR|D Chain D, Crystal Structure Of 2-Dehydro-3-Deoxyphosphogluconate
Aldolase From Vibrio Fischeri Es114
Length = 248
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 21/42 (50%)
Query: 78 HRIVGSLSGTLGYVMSEVEDGKPLSQVVKAAKSLGYTEPDPR 119
H +VG LS V + VED K S+V A S+G DP
Sbjct: 36 HVLVGVLSKNYPDVDTAVEDXKKYSEVTNNAVSVGLGAGDPN 77
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 0.138 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,064,147
Number of Sequences: 62578
Number of extensions: 281296
Number of successful extensions: 665
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 644
Number of HSP's gapped (non-prelim): 14
length of query: 267
length of database: 14,973,337
effective HSP length: 97
effective length of query: 170
effective length of database: 8,903,271
effective search space: 1513556070
effective search space used: 1513556070
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: 50 (23.9 bits)