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= 047675
(471 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 223 bits (569), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 120/313 (38%), Positives = 168/313 (53%), Gaps = 46/313 (14%)
Query: 203 PEWLSESDRDWQYKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNVFMYGDGP 262
P + +D YKT+ A+AA P++ RY+ +KAG Y E + V +K+ N+ GDG
Sbjct: 7 PNVVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGR 66
Query: 263 RKTIFTGRKNNRERISTYKTAS-------------------------------------F 285
TI T KN ++ +T+ +A+ F
Sbjct: 67 TSTIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGSDLSAF 126
Query: 286 Y---------ILYVQTHCQLYRNCVISGTVDFIFGDSSTVIQNSLIIATKPMYNPKNTVT 336
Y LYV ++ Q + NC I+GTVDFIFG+++ V+Q+ I A +P KN VT
Sbjct: 127 YRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPGSGQKNMVT 186
Query: 337 AHGLEDRRETTGLIIQNCRIVPEELLYPVRFKIPTYLGRPWKLYSRTIIMETTMGDFIQP 396
A G D + TG++IQ RI L PV+ PTYLGRPWK YSRT++M++++ + I P
Sbjct: 187 AQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSITNVINP 246
Query: 397 AGWLEWQGNFPPDTLYHAEHANMGPRAATDKRVNWKGFDLMTNRNEAPLYAAGTFIQGNA 456
AGW W GNF DTLY+ E+ N G AAT RV WKGF ++T+ EA + G+FI G +
Sbjct: 247 AGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGSFIAGGS 306
Query: 457 WLKDTGGTYFLGL 469
WLK T + LGL
Sbjct: 307 WLKATTFPFSLGL 319
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 204 bits (519), Expect = 8e-53, Method: Compositional matrix adjust.
Identities = 109/301 (36%), Positives = 152/301 (50%), Gaps = 46/301 (15%)
Query: 215 YKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNVFMYGDGPRKTIFTGRKNNR 274
Y+T+ A+AA P RY+ YVK G+Y E + V ++N+ + GDG T TG N
Sbjct: 15 YQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYATTITGSLNVV 74
Query: 275 ERISTYKTASFY----------------------------------------------IL 288
+ +T+++A+ L
Sbjct: 75 DGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVGADMSVINRCRIDAYQDTL 134
Query: 289 YVQTHCQLYRNCVISGTVDFIFGDSSTVIQNSLIIATKPMYNPKNTVTAHGLEDRRETTG 348
Y + Q YR+ ++GTVDFIFG+++ V Q ++A KP +N VTA G D + TG
Sbjct: 135 YAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKYQQNMVTAQGRTDPNQATG 194
Query: 349 LIIQNCRIVPEELLYPVRFKIPTYLGRPWKLYSRTIIMETTMGDFIQPAGWLEWQGNFPP 408
IQ C I+ L PV + PTYLGRPWK YSRT++ME+ +G I PAGW EW G+F
Sbjct: 195 TSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGGLINPAGWAEWDGDFAL 254
Query: 409 DTLYHAEHANMGPRAATDKRVNWKGFDLMTNRNEAPLYAAGTFIQGNAWLKDTGGTYFLG 468
TLY+ E N GP A T KRV W G+ ++T+ +A + IQG +WL+ TG Y G
Sbjct: 255 KTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLIQGGSWLRSTGVAYVDG 314
Query: 469 L 469
L
Sbjct: 315 L 315
>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
Length = 342
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 47/167 (28%), Positives = 70/167 (41%), Gaps = 34/167 (20%)
Query: 288 LYVQTHCQLYRNCVISGTVDFIFGDSSTVIQNSLII----ATKPMYNPKNTVTAHGLEDR 343
LYV + +C ISGTVDFIFGD + + N ++ A N +TA +
Sbjct: 156 LYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPS-TNI 214
Query: 344 RETTGLIIQNCRIVPEELLYPVRFKIPTY-LGRPW--------------KLYSRTIIMET 388
+ GL+I N R++ E P + +Y LGRPW +T+ + T
Sbjct: 215 NQKYGLVITNSRVIRESDSVPAK----SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNT 270
Query: 389 TMGDFIQPAGWLEWQGN--------FPPDTLYHAEHANMGPRAATDK 427
+M + I GW + G F P+ E+ + G AA K
Sbjct: 271 SMDNHIY--GWDKMSGKDKNGNTIWFNPEDSRFFEYKSYGAGAAVSK 315
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 202 YPEWLSESDRDWQ-YKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNV 255
Y +S+S D + +KTI A+A+ P + ++ +K G Y+E +T+TR +++
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRNNLHL 57
>pdb|2NSP|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NSP|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NST|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NST|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NT6|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT6|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT9|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
pdb|2NT9|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
Length = 342
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 46/167 (27%), Positives = 69/167 (41%), Gaps = 34/167 (20%)
Query: 288 LYVQTHCQLYRNCVISGTVDFIFGDSSTVIQNSLII----ATKPMYNPKNTVTAHGLEDR 343
LYV + +C ISGTVDFIFGD + + N ++ A N +TA +
Sbjct: 156 LYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPS-TNI 214
Query: 344 RETTGLIIQNCRIVPEELLYPVRFKIPTY-LGRPW--------------KLYSRTIIMET 388
+ GL+I N R++ E P + +Y LGRPW +T+ + T
Sbjct: 215 NQKYGLVITNSRVIRESDSVPAK----SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNT 270
Query: 389 TMGDFIQPAGWLEWQGN--------FPPDTLYHAEHANMGPRAATDK 427
+M + I GW + G F P+ E+ + G A K
Sbjct: 271 SMDNHIY--GWDKMSGKDKNGNTIWFNPEDSRFFEYKSYGAGATVSK 315
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 202 YPEWLSESDRDWQ-YKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNV 255
Y +S+S D + +KTI A+A+ P + ++ +K G Y+E +T+TR +++
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRNNLHL 57
>pdb|2NTB|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTB|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTP|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTP|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTQ|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
pdb|2NTQ|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
Length = 342
Score = 52.4 bits (124), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 46/167 (27%), Positives = 69/167 (41%), Gaps = 34/167 (20%)
Query: 288 LYVQTHCQLYRNCVISGTVDFIFGDSSTVIQNSLII----ATKPMYNPKNTVTAHGLEDR 343
LYV + +C ISGTVDFIFGD + + N ++ A N +TA +
Sbjct: 156 LYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPS-TNI 214
Query: 344 RETTGLIIQNCRIVPEELLYPVRFKIPTY-LGRPW--------------KLYSRTIIMET 388
+ GL+I N R++ E P + +Y LGRPW +T+ + T
Sbjct: 215 NQKYGLVITNSRVIRESDSVPAK----SYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNT 270
Query: 389 TMGDFIQPAGWLEWQGN--------FPPDTLYHAEHANMGPRAATDK 427
+M + I GW + G F P+ E+ + G A K
Sbjct: 271 SMDNHIY--GWDKMSGKDKNGNTIWFNPEDSRFFEYKSYGAGATVSK 315
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 202 YPEWLSESDRDWQ-YKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNV 255
Y +S+S D + +KTI A+A+ P + ++ +K G Y+E +T+TR +++
Sbjct: 4 YNAVVSKSSSDGKTFKTIADAIASAPAG-STPFVILIKNGVYNERLTITRNNLHL 57
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 49/166 (29%), Positives = 68/166 (40%), Gaps = 34/166 (20%)
Query: 288 LYVQTHCQLY-RNCVISGTVDFIFGDSSTVIQNSLIIA--TKPMYNPKNTVTAHGLEDRR 344
LY +T + Y +C ISG VDFIFG TV N I+A + P +TA
Sbjct: 182 LYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNIVARDRSDIEPPYGYITAPSTL-TT 240
Query: 345 ETTGLIIQNCRIVPEELLYPVRFKIPTYLGRPWK--------------LYSRTIIMETTM 390
GLI N R+ E + F LGRPW +++ + TTM
Sbjct: 241 SPYGLIFINSRLTKEPGVPANSFA----LGRPWHPTTTFADGRYADPAAIGQSVFINTTM 296
Query: 391 GDFIQPAGWLEWQGN---------FPPDTLYHAEHANMGPRAATDK 427
D I GW + G +P D+ + E + GP AA ++
Sbjct: 297 DDHIY--GWDKMSGKDKQGEKIWFYPQDSRFF-EANSQGPGAAINE 339
>pdb|3CV2|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
pdb|3CV2|B Chain B, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
Length = 532
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 41/109 (37%), Gaps = 15/109 (13%)
Query: 153 GLQNAPQLTSNALAIVSAISGILNTFHIPQNMAATSRRLLHAHKTGNGEYPEWLSES--- 209
G Q LT+ A+ ++ L T PQ + R+ NG P+++SE+
Sbjct: 17 GEQEKQILTAEAVEFLTE----LVTHFTPQRNKLLAARIQQQQDIDNGTLPDFISETASI 72
Query: 210 -DRDWQYKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNVFM 257
D DW+ + I P +L R + I V VFM
Sbjct: 73 RDADWKIRGI-------PADLEDRRVEITGPVERKMVINALNANVKVFM 114
>pdb|3CUZ|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
pdb|3CV1|A Chain A, Atomic Resolution Structures Of Escherichia Coli And
Bacillis Anthracis Malate Synthase A: Comparison With
Isoform G And Implications For Structure Based Drug
Design
Length = 532
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 41/109 (37%), Gaps = 15/109 (13%)
Query: 153 GLQNAPQLTSNALAIVSAISGILNTFHIPQNMAATSRRLLHAHKTGNGEYPEWLSES--- 209
G Q LT+ A+ ++ L T PQ + R+ NG P+++SE+
Sbjct: 17 GEQEKQILTAEAVEFLTE----LVTHFTPQRNKLLAARIQQQQDIDNGTLPDFISETASI 72
Query: 210 -DRDWQYKTIGSALAAYPKNLNGRYITYVKAGSYDEYITVTRKQVNVFM 257
D DW+ + I P +L R + I V VFM
Sbjct: 73 RDADWKIRGI-------PADLEDRRVEITGPVERKMVINALNANVKVFM 114
>pdb|2AZ4|A Chain A, Crystal Structure Of A Protein Of Unknown Function From
Enterococcus Faecalis V583
pdb|2AZ4|B Chain B, Crystal Structure Of A Protein Of Unknown Function From
Enterococcus Faecalis V583
Length = 429
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 314 STVIQNSLIIATKPMYNPKNTVTAHGLEDRR-ETTGLIIQNCRIVPEELLYPVRFKIPTY 372
T+I N L+ K +Y+P+ HG ED+ + T + + + + ++ + +P Y
Sbjct: 52 ETLINNRLVPELKDLYDPRLGYEYHGAEDKDYQHTAVFLSHAHLDHSRMINYLDPAVPLY 111
Query: 373 LGRPWKLYSRTIIMETTMGDFIQPAGWLE 401
+ K+ ++ GDF+ P+ + E
Sbjct: 112 TLKETKMILNSL---NRKGDFLIPSPFEE 137
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 0.132 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,046,029
Number of Sequences: 62578
Number of extensions: 548212
Number of successful extensions: 1141
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1127
Number of HSP's gapped (non-prelim): 17
length of query: 471
length of database: 14,973,337
effective HSP length: 102
effective length of query: 369
effective length of database: 8,590,381
effective search space: 3169850589
effective search space used: 3169850589
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: 53 (25.0 bits)