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= 018252
(359 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CW6|A Chain A, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|B Chain B, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|C Chain C, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|D Chain D, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|E Chain E, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|2CW6|F Chain F, Crystal Structure Of Human Hmg-Coa Lyase: Insights Into
Catalysis And The Molecular Basis For
Hydroxymethylglutaric Aciduria
pdb|3MP3|A Chain A, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|B Chain B, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|C Chain C, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|D Chain D, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|E Chain E, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
pdb|3MP3|F Chain F, Crystal Structure Of Human Lyase In Complex With Inhibitor
Hg-Coa
Length = 298
Score = 258 bits (660), Expect = 3e-69, Method: Compositional matrix adjust.
Identities = 126/223 (56%), Positives = 156/223 (69%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ VKIVEVGPRDGLQNEKN V T VK++LI L +GL V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPRDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V++ ++ G PVLTPNL +ASE F+K NINCSIE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ A+ AA+ +I VRGYVSC +GCP EG I P+KVA V K+ + MGC+EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQV 345
GTPG + ML AVM VP+ LAVH HDTYGQ+L N L++LQ+
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQM 224
>pdb|3MP4|A Chain A, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|B Chain B, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|C Chain C, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|D Chain D, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|E Chain E, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP4|F Chain F, Crystal Structure Of Human Lyase R41m Mutant
pdb|3MP5|A Chain A, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|B Chain B, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|C Chain C, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|D Chain D, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|E Chain E, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
pdb|3MP5|F Chain F, Crystal Structure Of Human Lyase R41m In Complex With
Hmg-Coa
Length = 298
Score = 256 bits (654), Expect = 1e-68, Method: Compositional matrix adjust.
Identities = 125/223 (56%), Positives = 155/223 (69%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ VKIVEVGP DGLQNEKN V T VK++LI L +GL V+E TSFVSPKWVPQ+ D
Sbjct: 2 LPKRVKIVEVGPMDGLQNEKNIVSTPVKIKLIDMLSEAGLSVIETTSFVSPKWVPQMGDH 61
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V++ ++ G PVLTPNL +ASE F+K NINCSIE+S
Sbjct: 62 TEVLKGIQKFPGINYPVLTPNLKGFEAAVAAGAKEVVIFGAASELFTKKNINCSIEESFQ 121
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ A+ AA+ +I VRGYVSC +GCP EG I P+KVA V K+ + MGC+EISLGDTIGV
Sbjct: 122 RFDAILKAAQSANISVRGYVSCALGCPYEGKISPAKVAEVTKKFYSMGCYEISLGDTIGV 181
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQV 345
GTPG + ML AVM VP+ LAVH HDTYGQ+L N L++LQ+
Sbjct: 182 GTPGIMKDMLSAVMQEVPLAALAVHCHDTYGQALANTLMALQM 224
>pdb|2FTP|A Chain A, Crystal Structure Of Hydroxymethylglutaryl-Coa Lyase From
Pseudomonas Aeruginosa
Length = 302
Score = 227 bits (579), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 111/221 (50%), Positives = 145/221 (65%)
Query: 123 IPRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADA 182
+P+ V++VEVGPRDGLQNEK + K+ L+ L ++GL +E SFVSPKWVPQ+A +
Sbjct: 5 LPKKVRLVEVGPRDGLQNEKQPIEVADKIRLVDDLSAAGLDYIEVGSFVSPKWVPQMAGS 64
Query: 183 RDVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLV 242
+V +R G L PNL +ASEAFS+ NINCSI+DSL
Sbjct: 65 AEVFAGIRQRPGVTYAALAPNLKGFEAALESGVKEVAVFAAASEAFSQRNINCSIKDSLE 124
Query: 243 RYRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGV 302
R+ V AA+ + VRGY+SCV+GCP +G + P +VA+VA+EL MGC+E+SLGDTIGV
Sbjct: 125 RFVPVLEAARQHQVRVRGYISCVLGCPYDGDVDPRQVAWVARELQQMGCYEVSLGDTIGV 184
Query: 303 GTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISL 343
GT G ++EAV + VP E+LA H HDTYGQ+L NI SL
Sbjct: 185 GTAGATRRLIEAVASEVPRERLAGHFHDTYGQALANIYASL 225
>pdb|1YDN|A Chain A, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|B Chain B, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|C Chain C, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35.
pdb|1YDN|D Chain D, Crystal Structure Of The Hmg-Coa Lyase From Brucella
Melitensis, Northeast Structural Genomics Target Lr35
Length = 295
Score = 213 bits (541), Expect = 2e-55, Method: Compositional matrix adjust.
Identities = 111/218 (50%), Positives = 137/218 (62%)
Query: 127 VKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADARDVM 186
V+IVE RDGLQNEK VPT K+ LI RL G +EATSFVSPKWVPQLAD+R+V
Sbjct: 5 VEIVEXAARDGLQNEKRFVPTADKIALINRLSDCGYARIEATSFVSPKWVPQLADSREVX 64
Query: 187 EAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLVRYRA 246
+R +G R VL PN SASE FSK+NINC+I +S+ R
Sbjct: 65 AGIRRADGVRYSVLVPNXKGYEAAAAAHADEIAVFISASEGFSKANINCTIAESIERLSP 124
Query: 247 VAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPG 306
V AA + +RGYVSCVV CP +G + P VA V ++L +GC E+SLGDTIG GTP
Sbjct: 125 VIGAAINDGLAIRGYVSCVVECPYDGPVTPQAVASVTEQLFSLGCHEVSLGDTIGRGTPD 184
Query: 307 TVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQ 344
TV L+AV+A+ P LA H HDT G++L NI +SL+
Sbjct: 185 TVAAXLDAVLAIAPAHSLAGHYHDTGGRALDNIRVSLE 222
>pdb|1YDO|A Chain A, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|B Chain B, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|C Chain C, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181.
pdb|1YDO|D Chain D, Crystal Structure Of The Bacillis Subtilis Hmg-Coa Lyase,
Northeast Structural Genomics Target Sr181
Length = 307
Score = 161 bits (407), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 88/221 (39%), Positives = 123/221 (55%)
Query: 124 PRFVKIVEVGPRDGLQNEKNTVPTGVKVELIRRLVSSGLPVVEATSFVSPKWVPQLADAR 183
P+ V I EVGPRDGLQNE + T K+ I +L +GL +E TSFV PKW+P L DA
Sbjct: 4 PKKVTIKEVGPRDGLQNEPVWIATEDKITWINQLSRTGLSYIEITSFVHPKWIPALRDAI 63
Query: 184 DVMEAVRDLEGARLPVLTPNLXXXXXXXXXXXXXXXXXXSASEAFSKSNINCSIEDSLVR 243
DV + + +G L PN SASE ++ NIN S +SL
Sbjct: 64 DVAKGIDREKGVTYAALVPNQRGLENALEGGINEACVFXSASETHNRKNINKSTSESLHI 123
Query: 244 YRAVAHAAKVLSIPVRGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVG 303
+ V + A+ ++ R Y+S V GCP E +P +V +++ L + G E+SLGDTIG
Sbjct: 124 LKQVNNDAQKANLTTRAYLSTVFGCPYEKDVPIEQVIRLSEALFEFGISELSLGDTIGAA 183
Query: 304 TPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISLQ 344
P V +LEA++A P ++A+H HDT G +L N + +LQ
Sbjct: 184 NPAQVETVLEALLARFPANQIALHFHDTRGTALANXVTALQ 224
>pdb|3IVS|A Chain A, Homocitrate Synthase Lys4
pdb|3IVS|B Chain B, Homocitrate Synthase Lys4
Length = 423
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 284 KELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISL 343
K + +G + + DT+G TP V ++ + VV + + H H+ G ++ N +L
Sbjct: 187 KAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGXAIANAYCAL 245
Query: 344 QVSPMH 349
+ H
Sbjct: 246 EAGATH 251
>pdb|3IVT|A Chain A, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVT|B Chain B, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVU|A Chain A, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3IVU|B Chain B, Homocitrate Synthase Lys4 Bound To 2-Og
pdb|3MI3|A Chain A, Homocitrate Synthase Lys4 Bound To Lysine
pdb|3MI3|B Chain B, Homocitrate Synthase Lys4 Bound To Lysine
Length = 423
Score = 35.0 bits (79), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 16/66 (24%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 284 KELHDMGCFEISLGDTIGVGTPGTVVPMLEAVMAVVPVEKLAVHLHDTYGQSLPNILISL 343
K + +G + + DT+G TP V ++ + VV + + H H+ G ++ N +L
Sbjct: 187 KAVDKIGVNRVGIADTVGCATPRQVYDLIRTLRGVVSCD-IECHFHNDTGMAIANAYCAL 245
Query: 344 QVSPMH 349
+ H
Sbjct: 246 EAGATH 251
>pdb|2ZTJ|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Alpha-Ketoglutarate
pdb|2ZTK|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Homocitrate
pdb|2ZYF|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Magnesuim Ion And
Alpha-Ketoglutarate
Length = 382
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVV-PVEKLAVHLHDTYGQSLPNILISLQVSPMH 349
+ L DT+GV TP V ++ V VV P + H H+ G ++ N +++ H
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATH 217
>pdb|3A9I|A Chain A, Crystal Structure Of Homocitrate Synthase From Thermus
Thermophilus Complexed With Lys
Length = 376
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 294 ISLGDTIGVGTPGTVVPMLEAVMAVV-PVEKLAVHLHDTYGQSLPNILISLQVSPMH 349
+ L DT+GV TP V ++ V VV P + H H+ G ++ N +++ H
Sbjct: 161 VGLADTVGVATPRQVYALVREVRRVVGPRVDIEFHGHNDTGCAIANAYEAIEAGATH 217
>pdb|3MMZ|A Chain A, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|B Chain B, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|C Chain C, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
pdb|3MMZ|D Chain D, Crystal Structure Of Putative Had Family Hydrolase From
Streptomyces Avermitilis Ma-4680
Length = 176
Score = 28.5 bits (62), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%), Gaps = 6/53 (11%)
Query: 247 VAHAAKVLSIPV-----RGYVSCVVGCPVEGAIPPSKVAYVAKELHDMGCFEI 294
VA A+ L IPV R ++ C +G I P +V YV +++D+ CF +
Sbjct: 69 VAARARKLKIPVLHGIDRKDLALKQWCEEQG-IAPERVLYVGNDVNDLPCFAL 120
>pdb|3Q3E|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3E|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase
pdb|3Q3H|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3H|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In Complex With Udp-Glc
pdb|3Q3I|A Chain A, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
pdb|3Q3I|B Chain B, Crystal Structure Of The Actinobacillus Pleuropneumoniae
Hmw1c Glycosyltransferase In The Presence Of Peptide
N1131
Length = 631
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 31/70 (44%), Gaps = 14/70 (20%)
Query: 270 VEGAIPPSKVAYVAKELHDMGCFEISLGDTIGVGTPGTVVPM----LEAVMAVVPVEKLA 325
V A+ P KV Y+ +E + + +G T + + LEA+ A+ K+
Sbjct: 422 VPSALAPEKVDYLLREN----------PEVVNIGIASTTMKLNPYFLEALKAIRDRAKVK 471
Query: 326 VHLHDTYGQS 335
VH H GQS
Sbjct: 472 VHFHFALGQS 481
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 27.7 bits (60), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/33 (33%), Positives = 16/33 (48%)
Query: 44 IEGSSCSTSNSYDEDYDEYTREAFPWRRHTRDM 76
+E S SN YD + +E FPW +D+
Sbjct: 3 LEDSDAGASNEYDSSPAAWNKEDFPWSGKVKDI 35
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
0.319 0.134 0.404
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,099,099
Number of Sequences: 62578
Number of extensions: 407791
Number of successful extensions: 1032
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1015
Number of HSP's gapped (non-prelim): 16
length of query: 359
length of database: 14,973,337
effective HSP length: 100
effective length of query: 259
effective length of database: 8,715,537
effective search space: 2257324083
effective search space used: 2257324083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)