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= 021218
(316 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FR7|A Chain A, Ketol-Acid Reductoisomerase (Kari) In Complex With Mg2+
pdb|3FR7|B Chain B, Ketol-Acid Reductoisomerase (Kari) In Complex With Mg2+
pdb|3FR8|A Chain A, Rice Ketolacid Reductoisomerase In Complex With Mg2+-Nadph
pdb|3FR8|B Chain B, Rice Ketolacid Reductoisomerase In Complex With Mg2+-Nadph
Length = 525
Score = 408 bits (1049), Expect = e-114, Method: Compositional matrix adjust.
Identities = 200/236 (84%), Positives = 213/236 (90%)
Query: 72 LDFETSVFKKDMISLADRDEYIVRGGRDLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLR 131
LDF+TSVF K+ +SLA +EYIVRGGR+LF LLP+AF GI QIGVIGWGSQGPAQAQNLR
Sbjct: 15 LDFDTSVFNKEKVSLAGHEEYIVRGGRNLFPLLPEAFKGIKQIGVIGWGSQGPAQAQNLR 74
Query: 132 DSLAEAKSDIVVKVGLRKGSRSFAEARAAGFTEENGTLGDIYETISGSDLVLLLISDAAQ 191
DSLAEAKSDIVVK+GLRKGS+SF EARAAGFTEE+GTLGDI+ET+SGSDLVLLLISDAAQ
Sbjct: 75 DSLAEAKSDIVVKIGLRKGSKSFDEARAAGFTEESGTLGDIWETVSGSDLVLLLISDAAQ 134
Query: 192 ADNYEKIFSCMKPNSIXXXXXXXXXXXXQSMGLDFPKNIGVIAVCPKGMGPSVRRLYVQG 251
ADNYEKIFS MKPNSI QS GLDFPKNI VIAVCPKGMGPSVRRLYVQG
Sbjct: 135 ADNYEKIFSHMKPNSILGLSHGFLLGHLQSAGLDFPKNISVIAVCPKGMGPSVRRLYVQG 194
Query: 252 KEINGAGINSSFAVHQDVDGRATNVALGWSVALGSPFTFATTLEQEYRSDIFGERG 307
KEINGAGINSSFAVHQDVDGRAT+VALGWSVALGSPFTFATTLEQEY+SDIFGERG
Sbjct: 195 KEINGAGINSSFAVHQDVDGRATDVALGWSVALGSPFTFATTLEQEYKSDIFGERG 250
>pdb|1YVE|I Chain I, Acetohydroxy Acid Isomeroreductase Complexed With Nadph,
Magnesium And Inhibitor Ipoha (N-Hydroxy-N-
Isopropyloxamate)
pdb|1YVE|J Chain J, Acetohydroxy Acid Isomeroreductase Complexed With Nadph,
Magnesium And Inhibitor Ipoha (N-Hydroxy-N-
Isopropyloxamate)
pdb|1YVE|K Chain K, Acetohydroxy Acid Isomeroreductase Complexed With Nadph,
Magnesium And Inhibitor Ipoha (N-Hydroxy-N-
Isopropyloxamate)
pdb|1YVE|L Chain L, Acetohydroxy Acid Isomeroreductase Complexed With Nadph,
Magnesium And Inhibitor Ipoha (N-Hydroxy-N-
Isopropyloxamate)
pdb|1QMG|A Chain A, Acetohydroxyacid Isomeroreductase Complexed With Its
Reaction Product Dihydroxy-methylvalerate, Manganese And
Adp-ribose.
pdb|1QMG|B Chain B, Acetohydroxyacid Isomeroreductase Complexed With Its
Reaction Product Dihydroxy-methylvalerate, Manganese And
Adp-ribose.
pdb|1QMG|C Chain C, Acetohydroxyacid Isomeroreductase Complexed With Its
Reaction Product Dihydroxy-methylvalerate, Manganese And
Adp-ribose.
pdb|1QMG|D Chain D, Acetohydroxyacid Isomeroreductase Complexed With Its
Reaction Product Dihydroxy-methylvalerate, Manganese And
Adp-ribose
Length = 524
Score = 403 bits (1035), Expect = e-113, Method: Compositional matrix adjust.
Identities = 195/250 (78%), Positives = 217/250 (86%), Gaps = 2/250 (0%)
Query: 60 MASETALKTP--FLLDFETSVFKKDMISLADRDEYIVRGGRDLFNLLPDAFNGINQIGVI 117
M S ++ TP DF++SVFKK+ ++L+ DEYIVRGGR+LF LLPDAF GI QIGVI
Sbjct: 1 MVSAPSIDTPSATTFDFDSSVFKKEKVTLSGHDEYIVRGGRNLFPLLPDAFKGIKQIGVI 60
Query: 118 GWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAEARAAGFTEENGTLGDIYETIS 177
GWGSQ PAQAQNL+DSL EAKSD+VVK+GLRKGS SFAEARAAGF+EENGTLGD++ETIS
Sbjct: 61 GWGSQAPAQAQNLKDSLTEAKSDVVVKIGLRKGSNSFAEARAAGFSEENGTLGDMWETIS 120
Query: 178 GSDLVLLLISDAAQADNYEKIFSCMKPNSIXXXXXXXXXXXXQSMGLDFPKNIGVIAVCP 237
GSDLVLLLISD+AQADNYEK+FS MKPNSI QS+G DFPKNI VIAVCP
Sbjct: 121 GSDLVLLLISDSAQADNYEKVFSHMKPNSILGLSHGFLLGHLQSLGQDFPKNISVIAVCP 180
Query: 238 KGMGPSVRRLYVQGKEINGAGINSSFAVHQDVDGRATNVALGWSVALGSPFTFATTLEQE 297
KGMGPSVRRLYVQGKE+NGAGINSSFAVHQDVDGRAT+VALGWS+ALGSPFTFATTLEQE
Sbjct: 181 KGMGPSVRRLYVQGKEVNGAGINSSFAVHQDVDGRATDVALGWSIALGSPFTFATTLEQE 240
Query: 298 YRSDIFGERG 307
Y+SDIFGERG
Sbjct: 241 YKSDIFGERG 250
>pdb|1NP3|A Chain A, Crystal Structure Of Class I Acetohydroxy Acid
Isomeroreductase From Pseudomonas Aeruginosa
pdb|1NP3|B Chain B, Crystal Structure Of Class I Acetohydroxy Acid
Isomeroreductase From Pseudomonas Aeruginosa
pdb|1NP3|C Chain C, Crystal Structure Of Class I Acetohydroxy Acid
Isomeroreductase From Pseudomonas Aeruginosa
pdb|1NP3|D Chain D, Crystal Structure Of Class I Acetohydroxy Acid
Isomeroreductase From Pseudomonas Aeruginosa
Length = 338
Score = 87.4 bits (215), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 64/198 (32%), Positives = 100/198 (50%), Gaps = 24/198 (12%)
Query: 113 QIGVIGWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAEARAAGFTEENGTLGDI 172
++ +IG+GSQG A A NL+DS + V VGLR GS + A+A A G + D+
Sbjct: 18 KVAIIGYGSQGHAHACNLKDS------GVDVTVGLRSGSATVAKAEAHGLK-----VADV 66
Query: 173 YETISGSDLVLLLISDAAQADNY-EKIFSCMKPNSIXXXXXXXXXXXXQSMGLDFPK-NI 230
++ +D+V++L D Q Y E+I +K + Q + P+ ++
Sbjct: 67 KTAVAAADVVMILTPDEFQGRLYKEEIEPNLKKGATLAFAHGFSIHYNQVV----PRADL 122
Query: 231 GVIAVCPKGMGPSVRRLYVQGKEINGAGINSSFAVHQDVDGRATNVALGWSVALGSPFT- 289
VI + PK G +VR +V+G GI A++QD G A NVAL ++ +G T
Sbjct: 123 DVIMIAPKAPGHTVRSEFVKG-----GGIPDLIAIYQDASGNAKNVALSYACGVGGGRTG 177
Query: 290 -FATTLEQEYRSDIFGER 306
TT + E +D+FGE+
Sbjct: 178 IIETTFKDETETDLFGEQ 195
>pdb|3ULK|A Chain A, E. Coli Ketol-Acid Reductoisomerase In Complex With Nadph
And Mg2+
pdb|3ULK|B Chain B, E. Coli Ketol-Acid Reductoisomerase In Complex With Nadph
And Mg2+
Length = 491
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 61/216 (28%), Positives = 92/216 (42%), Gaps = 23/216 (10%)
Query: 97 GRDLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAE 156
GRD F G ++ ++G G+QG Q N+RDS + + LRK + AE
Sbjct: 24 GRDEFADGASYLQG-KKVVIVGCGAQGLNQGLNMRDS------GLDISYALRK--EAIAE 74
Query: 157 ARAA--GFTEENGTLGDIYETISGSDLVLLLISDAAQADNYEKIFSCMKPNSIXXXXXXX 214
RA+ TE +G E I +DLV+ L D +D + MK +
Sbjct: 75 KRASWRKATENGFKVGTYEELIPQADLVINLTPDKQHSDVVRTVQPLMKDGAALGYSHGF 134
Query: 215 XXXXXQSMGLDFPKNIGVIAVCPKGMGPSVRRLYVQGKEINGAGINSSFAVHQDVDGRAT 274
+G K+I V+ V PK G VR Y + G G+ + AVH + D +
Sbjct: 135 NIV---EVGEQIRKDITVVMVAPKCPGTEVREEYKR-----GFGVPTLIAVHPENDPKGE 186
Query: 275 NVALGWSVALGSPFTFATTLEQ----EYRSDIFGER 306
+A+ + A + A LE E +SD+ GE+
Sbjct: 187 GMAIAKAWAAATGGHRAGVLESSFVAEVKSDLMGEQ 222
>pdb|1YRL|A Chain A, Escherichia Coli Ketol-Acid Reductoisomerase
pdb|1YRL|B Chain B, Escherichia Coli Ketol-Acid Reductoisomerase
pdb|1YRL|C Chain C, Escherichia Coli Ketol-Acid Reductoisomerase
pdb|1YRL|D Chain D, Escherichia Coli Ketol-Acid Reductoisomerase
Length = 491
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 61/216 (28%), Positives = 92/216 (42%), Gaps = 23/216 (10%)
Query: 97 GRDLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAE 156
GRD F G ++ ++G G+QG Q N+RDS + + LRK + AE
Sbjct: 24 GRDEFADGASYLQG-KKVVIVGCGAQGLNQGLNMRDS------GLDISYALRK--EAIAE 74
Query: 157 ARAA--GFTEENGTLGDIYETISGSDLVLLLISDAAQADNYEKIFSCMKPNSIXXXXXXX 214
RA+ TE +G E I +DLV+ L D +D + MK +
Sbjct: 75 KRASWRKATENGFKVGTYEELIPQADLVINLTPDKQHSDVVRTVQPLMKDGAALGYSHGF 134
Query: 215 XXXXXQSMGLDFPKNIGVIAVCPKGMGPSVRRLYVQGKEINGAGINSSFAVHQDVDGRAT 274
+G K+I V+ V PK G VR Y + G G+ + AVH + D +
Sbjct: 135 NIV---EVGEQIRKDITVVMVAPKCPGTEVREEYKR-----GFGVPTLIAVHPENDPKGE 186
Query: 275 NVALGWSVALGSPFTFATTLEQ----EYRSDIFGER 306
+A+ + A + A LE E +SD+ GE+
Sbjct: 187 GMAIAKAWAAATGGHRAGVLESSFVAEVKSDLMGEQ 222
>pdb|4GLX|A Chain A, Dna Ligase A In Complex With Inhibitor
Length = 586
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 99 DLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAEAR 158
DLF L G+ ++G P AQN+ ++L +AK + G R EA
Sbjct: 473 DLFKLTAGKLTGLERMG--------PKSAQNVVNALEKAKETTFARFLYALGIREVGEAT 524
Query: 159 AAGFTEENGTL 169
AAG GTL
Sbjct: 525 AAGLAAYFGTL 535
>pdb|2OWO|A Chain A, Last Stop On The Road To Repair: Structure Of E.Coli Dna
Ligase Bound To Nicked Dna-Adenylate
Length = 671
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 31/71 (43%), Gaps = 8/71 (11%)
Query: 99 DLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKSDIVVKVGLRKGSRSFAEAR 158
DLF L G+ ++G P AQN+ ++L +AK + G R EA
Sbjct: 473 DLFKLTAGKLTGLERMG--------PKSAQNVVNALEKAKETTFARFLYALGIREVGEAT 524
Query: 159 AAGFTEENGTL 169
AAG GTL
Sbjct: 525 AAGLAAYFGTL 535
>pdb|3VKH|A Chain A, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
pdb|3VKH|B Chain B, X-Ray Structure Of A Functional Full-Length Dynein Motor
Domain
Length = 3367
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 48/108 (44%), Gaps = 13/108 (12%)
Query: 93 IVRGGRDLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKS--DIVVKV----- 145
+VRG DLFN L + N I+ + + + +A + D L + +S D+ + V
Sbjct: 191 LVRGWDDLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWV 250
Query: 146 ---GLRKGS---RSFAEARAAGFTEENGTLGDIYETISGSDLVLLLIS 187
G+ GS A + F N I + +SG+ L+L +++
Sbjct: 251 YLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLILEVLA 298
>pdb|3VKG|A Chain A, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
pdb|3VKG|B Chain B, X-Ray Structure Of An Mtbd Truncation Mutant Of Dynein
Motor Domain
Length = 3245
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 27/104 (25%), Positives = 45/104 (43%), Gaps = 13/104 (12%)
Query: 93 IVRGGRDLFNLLPDAFNGINQIGVIGWGSQGPAQAQNLRDSLAEAKS--DIVVKV----- 145
+VRG DLFN L + N I+ + + + +A + D L + +S D+ + V
Sbjct: 191 LVRGWDDLFNKLAEHLNSISAMKMSPYYKVFEEEANHWDDRLNKVRSLLDVWIDVQRRWV 250
Query: 146 ---GLRKGS---RSFAEARAAGFTEENGTLGDIYETISGSDLVL 183
G+ GS A + F N I + +SG+ L+L
Sbjct: 251 YLEGIFSGSGDINQLLPAESTRFKSINSEFIAILKKVSGAPLIL 294
>pdb|2NQ2|C Chain C, An Inward-Facing Conformation Of A Putative Metal-Chelate
Type Abc Transporter.
pdb|2NQ2|D Chain D, An Inward-Facing Conformation Of A Putative Metal-Chelate
Type Abc Transporter
Length = 253
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 176 ISGSDLVLLLISDAAQADNYEKIFSCMKPNSI 207
++ D+VL L+ D AQ+ N +F+ +PN +
Sbjct: 161 LANQDIVLSLLIDLAQSQNMTVVFTTHQPNQV 192
>pdb|3AW8|A Chain A, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermus Thermophilus Hb8
pdb|3AW8|B Chain B, Crystal Structure Of N5-Carboxyaminoimidazole
Ribonucleotide Synthetase From Thermus Thermophilus Hb8
Length = 369
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 26/66 (39%), Gaps = 16/66 (24%)
Query: 11 PIPKFSPSPSSETLKEALKHLNLASFSSTAK----------------SLRALKTTTGRGS 54
P P F P E L+E LK + L + T + +L ALK GRG
Sbjct: 110 PTPPFHPVDGPEDLEEGLKRVGLPALLKTRRGGYDGKGQALVRTEEEALEALKALGGRGL 169
Query: 55 ALSAWM 60
L ++
Sbjct: 170 ILEGFV 175
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
0.317 0.133 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,505,802
Number of Sequences: 62578
Number of extensions: 326572
Number of successful extensions: 690
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 676
Number of HSP's gapped (non-prelim): 11
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)