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= 039111
(595 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 308 bits (788), Expect = 8e-84, Method: Compositional matrix adjust.
Identities = 143/312 (45%), Positives = 200/312 (64%)
Query: 281 DVVVAKDGSGNCTTINEALNFIPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMIGDGMY 340
+ VVA+DG+G+ T+ EA+ P KS IY+K G Y+E V + + + ++GDGMY
Sbjct: 4 NAVVAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMY 63
Query: 341 KTRITGNLNYVDGTPTMHTATVSVLGEFFMAKNIGFENSAGPEKHQAVALRVDADMSIFY 400
T ITG+LN VDG+ T +AT++ +G+ F+ ++I +N+AGP K QAVALRV ADMS+
Sbjct: 64 ATTITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVGADMSVIN 123
Query: 401 NCSMDGYQDTLYTHAKRQYYRDCTITGTIDFIFGDGSAFFQNCKIIVRKPLDNQHCIVTA 460
C +D YQDTLY H++RQ+YRD +TGT+DFIFG+ + FQ C+++ RKP Q +VTA
Sbjct: 124 RCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKYQQNMVTA 183
Query: 461 QGRNVTHQPTAIVIQNSSIIADHVYWPVRNKIKSYLGRPWRIHSRTVIMETFIDDLIQPQ 520
QGR +Q T IQ +IIA PV + +YLGRPW+ +SRTV+ME+++ LI P
Sbjct: 184 QGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGGLINPA 243
Query: 521 GWLPWEGEFGIHTCFYAEYGNYGPGANKTGRVTWQGVKSIDRLEEAFEFTAGKFFDGDDW 580
GW W+G+F + T +Y E+ N GPGA + RV W G I +A FT K G W
Sbjct: 244 GWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLIQGGSW 303
Query: 581 IKPRGVPYVSGF 592
++ GV YV G
Sbjct: 304 LRSTGVAYVDGL 315
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 300 bits (768), Expect = 1e-81, Method: Compositional matrix adjust.
Identities = 143/313 (45%), Positives = 198/313 (63%)
Query: 280 PDVVVAKDGSGNCTTINEALNFIPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMIGDGM 339
P+VVVA DGSG+ T++EA+ P+ S I IK G+Y+E V + + + +GDG
Sbjct: 7 PNVVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGR 66
Query: 340 YKTRITGNLNYVDGTPTMHTATVSVLGEFFMAKNIGFENSAGPEKHQAVALRVDADMSIF 399
T IT + N DG+ T ++ATV+ +G F+A++I F+N+AG KHQAVALRV +D+S F
Sbjct: 67 TSTIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGSDLSAF 126
Query: 400 YNCSMDGYQDTLYTHAKRQYYRDCTITGTIDFIFGDGSAFFQNCKIIVRKPLDNQHCIVT 459
Y C + YQD+LY H+ RQ++ +C I GT+DFIFG+ + Q+C I R+P Q +VT
Sbjct: 127 YRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPGSGQKNMVT 186
Query: 460 AQGRNVTHQPTAIVIQNSSIIADHVYWPVRNKIKSYLGRPWRIHSRTVIMETFIDDLIQP 519
AQGR +Q T IVIQ S I A PV++ +YLGRPW+ +SRTV+M++ I ++I P
Sbjct: 187 AQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSITNVINP 246
Query: 520 QGWLPWEGEFGIHTCFYAEYGNYGPGANKTGRVTWQGVKSIDRLEEAFEFTAGKFFDGDD 579
GW PW+G F + T +Y EY N G GA +GRVTW+G K I EA FT G F G
Sbjct: 247 AGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGSFIAGGS 306
Query: 580 WIKPRGVPYVSGF 592
W+K P+ G
Sbjct: 307 WLKATTFPFSLGL 319
>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 = 102 bits (254), Expect = 6e-22, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 144/317 (45%), Gaps = 61/317 (19%)
Query: 281 DVVVAKDGSGNCT--TINEALNFIPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMIGDG 338
+ VV+K S T TI +A+ P S I IK G+Y E++ + R+ + + G+
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRN--NLHLKGES 61
Query: 339 MYKTRITGNLNYV----DGTP--TMHTATVSVLGEFFMAKNIGFEN-------------- 378
I DG+ T ++T+++ + F A+++ N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 379 SAGPEKHQAVALRV--DADMSIFYNCSMDGYQDTLYTHAKRQYYRDCTITGTIDFIFGDG 436
S+ + QAVAL V D + F + S+ GYQDTLY R ++ DC I+GT+DFIFGDG
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 437 SAFFQNCKIIVRKPLD----NQHCIVTAQGRNVTHQPTAIVIQNSSIIADHVYWPVRNKI 492
+A F NC ++ R D N +TA N+ +Q +VI NS +I + P
Sbjct: 182 TALFNNCDLVSRYRADVKSGNVSGYLTAPSTNI-NQKYGLVITNSRVIRESDSVPA---- 236
Query: 493 KSY-LGRPWRIHS--------------RTVIMETFIDDLIQPQGWLPWEGE--------F 529
KSY LGRPW + +TV + T +D+ I GW G+ F
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWF 294
Query: 530 GIHTCFYAEYGNYGPGA 546
+ EY +YG GA
Sbjct: 295 NPEDSRFFEYKSYGAGA 311
>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 = 102 bits (254), Expect = 7e-22, Method: Compositional matrix adjust.
Identities = 96/317 (30%), Positives = 144/317 (45%), Gaps = 61/317 (19%)
Query: 281 DVVVAKDGSGNCT--TINEALNFIPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMIGDG 338
+ VV+K S T TI +A+ P S I IK G+Y E++ + R+ + + G+
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRN--NLHLKGES 61
Query: 339 MYKTRITGNLNYV----DGTP--TMHTATVSVLGEFFMAKNIGFEN-------------- 378
I DG+ T ++T+++ + F A+++ N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 379 SAGPEKHQAVALRV--DADMSIFYNCSMDGYQDTLYTHAKRQYYRDCTITGTIDFIFGDG 436
S+ + QAVAL V D + F + S+ GYQDTLY R ++ DC I+GT+DFIFGDG
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 437 SAFFQNCKIIVRKPLD----NQHCIVTAQGRNVTHQPTAIVIQNSSIIADHVYWPVRNKI 492
+A F NC ++ R D N +TA N+ +Q +VI NS +I + P
Sbjct: 182 TALFNNCDLVSRYRADVKSGNVSGYLTAPSTNI-NQKYGLVITNSRVIRESDSVPA---- 236
Query: 493 KSY-LGRPWRIHS--------------RTVIMETFIDDLIQPQGWLPWEGE--------F 529
KSY LGRPW + +TV + T +D+ I GW G+ F
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWF 294
Query: 530 GIHTCFYAEYGNYGPGA 546
+ EY +YG GA
Sbjct: 295 NPEDSRFFEYKSYGAGA 311
>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 = 99.4 bits (246), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 95/317 (29%), Positives = 143/317 (45%), Gaps = 61/317 (19%)
Query: 281 DVVVAKDGSGNCT--TINEALNFIPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMIGDG 338
+ VV+K S T TI +A+ P S I IK G+Y E++ + R+ + + G+
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRN--NLHLKGES 61
Query: 339 MYKTRITGNLNYV----DGTP--TMHTATVSVLGEFFMAKNIGFEN-------------- 378
I DG+ T ++T+++ + F A+++ N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSD 121
Query: 379 SAGPEKHQAVALRV--DADMSIFYNCSMDGYQDTLYTHAKRQYYRDCTITGTIDFIFGDG 436
S+ + QAVAL V D + F + S+ GYQ TLY R ++ DC I+GT+DFIFGDG
Sbjct: 122 SSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDG 181
Query: 437 SAFFQNCKIIVRKPLD----NQHCIVTAQGRNVTHQPTAIVIQNSSIIADHVYWPVRNKI 492
+A F NC ++ R D N +TA N+ +Q +VI NS +I + P
Sbjct: 182 TALFNNCDLVSRYRADVKSGNVSGYLTAPSTNI-NQKYGLVITNSRVIRESDSVPA---- 236
Query: 493 KSY-LGRPWRIHS--------------RTVIMETFIDDLIQPQGWLPWEGE--------F 529
KSY LGRPW + +TV + T +D+ I GW G+ F
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI--YGWDKMSGKDKNGNTIWF 294
Query: 530 GIHTCFYAEYGNYGPGA 546
+ EY +YG GA
Sbjct: 295 NPEDSRFFEYKSYGAGA 311
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 95.1 bits (235), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 95/333 (28%), Positives = 143/333 (42%), Gaps = 58/333 (17%)
Query: 261 WLGPRNRKLLGLIDQAQFKPDVVVAKDGSGNCTTINEALNFIPKKSNKTTTIYIKEGIYQ 320
WLG + +LG ++ AQ+ V G ++IN AL PK + I++K G+Y
Sbjct: 14 WLGLISFAVLGTVNAAQYNAVVSTTPQGD-EFSSINAALKSAPK-DDTPFIIFLKNGVYT 71
Query: 321 EKVYLNRSMARVFMIGDGMYKTRITGNLNYVDGTP------TMHTATVSVLGEFFMAKNI 374
E++ + RS V + G+ T I N P T ++TV V F A+N+
Sbjct: 72 ERLEVARS--HVTLKGENRDGTVIGANTAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENL 129
Query: 375 GFENS-----------AGPEK---HQAVALRV--DADMSIFYNCSMDGYQDTLYTH-AKR 417
N P K QAVAL + ++D + F ++GYQDTLY+ R
Sbjct: 130 TIRNDFDFPANKKKADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSR 189
Query: 418 QYYRDCTITGTIDFIFGDGSAFFQNCKIIV--RKPLDNQHCIVTAQGRNVTHQPTAIVIQ 475
Y+ DC I+G +DFIFG G F NC I+ R ++ + +TA +T P ++
Sbjct: 190 SYFSDCEISGHVDFIFGSGITVFDNCNIVARDRSDIEPPYGYITAP-STLTTSPYGLIFI 248
Query: 476 NSSIIADHVYWPVRNKIKSYLGRPWRIHS--------------RTVIMETFIDDLIQPQG 521
NS + + P LGRPW + ++V + T +DD I G
Sbjct: 249 NSRLTKE----PGVPANSFALGRPWHPTTTFADGRYADPAAIGQSVFINTTMDDHI--YG 302
Query: 522 WLPWEGE--------FGIHTCFYAEYGNYGPGA 546
W G+ F + E + GPGA
Sbjct: 303 WDKMSGKDKQGEKIWFYPQDSRFFEANSQGPGA 335
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 56/237 (23%), Positives = 87/237 (36%), Gaps = 55/237 (23%)
Query: 279 KPDVVVAKDGSGNCT--TINEALNF-IPKKSNKTTTIYIKEGIYQEKVYLNRSMARVFMI 335
+PD VV G+ T TI A++ I K++NK I + G YQ VY+ + + +
Sbjct: 74 QPDFVVGPAGTQGVTHTTIQAAVDAAIIKRTNKRQYIAVMPGEYQGTVYVPAAPGGITLY 133
Query: 336 GDGM-------------------YKTRITGNLNYVDGTPTMH---------TATVSVL-G 366
G G ++ + Y+ G P + + ++ VL
Sbjct: 134 GTGEKPIDVKIGLSLDGGMSPADWRHDVNPRGKYMPGKPAWYMYDSCQSKRSDSIGVLCS 193
Query: 367 EFFMAKNIGF-------ENSAGPE----KHQAVALRVDADMSIFYNCSMDGYQDTLY--- 412
F ++N G EN+ G H AVALR D D N ++ G Q+T +
Sbjct: 194 AVFWSQNNGLQLQNLTIENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTN 253
Query: 413 ---------THAKRQYYRDCTITGTIDFIFGDGSAFFQNCKIIVRKPLDNQHCIVTA 460
R + I G +D + G G+ F N + V Q V A
Sbjct: 254 SGVQNRLETNRQPRTLVTNSYIEGDVDIVSGRGAVVFDNTEFRVVNSRTQQEAYVFA 310
>pdb|1X90|A Chain A, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
pdb|1X90|B Chain B, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 152
Score = 37.0 bits (84), Expect = 0.029, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 16/78 (20%)
Query: 108 SRTLKQLEK------DPRASLALEDCNELMDEAIEDLQRSFEELGKSDRQARYKMGPMIN 161
++TLK+L+ DPR+ LA C + + AI +L+ +FE L D M
Sbjct: 49 TQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGD--------GMGM 100
Query: 162 NLKTWLSSTITYQETCLD 179
N+K +S+ + +TCLD
Sbjct: 101 NMK--VSAALDGADTCLD 116
>pdb|1X91|A Chain A, Crystal Structure Of Mutant Form A Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 153
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 16/78 (20%)
Query: 108 SRTLKQLEK------DPRASLALEDCNELMDEAIEDLQRSFEELGKSDRQARYKMGPMIN 161
++TLK+L+ DPR+ LA C + + AI +L+ +FE L D M
Sbjct: 50 TQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGD--------GMGM 101
Query: 162 NLKTWLSSTITYQETCLD 179
N+K +S+ + +TCLD
Sbjct: 102 NMK--VSAALDGADTCLD 117
>pdb|1X8Z|A Chain A, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|B Chain B, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|C Chain C, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
Length = 153
Score = 37.0 bits (84), Expect = 0.030, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 40/78 (51%), Gaps = 16/78 (20%)
Query: 108 SRTLKQLEK------DPRASLALEDCNELMDEAIEDLQRSFEELGKSDRQARYKMGPMIN 161
++TLK+L+ DPR+ LA C + + AI +L+ +FE L D M
Sbjct: 50 TQTLKKLQSIIDGGVDPRSKLAYRSCVDEYESAIGNLEEAFEHLASGD--------GMGM 101
Query: 162 NLKTWLSSTITYQETCLD 179
N+K +S+ + +TCLD
Sbjct: 102 NMK--VSAALDGADTCLD 117
>pdb|4EFZ|A Chain A, Crystal Structure Of A Hypothetical Metallo-Beta-Lactamase
From Burkholderia Pseudomallei
pdb|4EFZ|B Chain B, Crystal Structure Of A Hypothetical Metallo-Beta-Lactamase
From Burkholderia Pseudomallei
Length = 298
Score = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 21/49 (42%)
Query: 263 GPRNRKLLGLIDQAQFKPDVVVAKDGSGNCTTINEALNFIPKKSNKTTT 311
GP + + G D A ++ GSG C I+ L++ PK T
Sbjct: 1 GPGSMTVEGFFDPATCTISYLLFDSGSGECALIDSVLDYDPKSGRTRTA 49
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
0.320 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,129,862
Number of Sequences: 62578
Number of extensions: 718612
Number of successful extensions: 1544
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 1528
Number of HSP's gapped (non-prelim): 12
length of query: 595
length of database: 14,973,337
effective HSP length: 104
effective length of query: 491
effective length of database: 8,465,225
effective search space: 4156425475
effective search space used: 4156425475
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 54 (25.4 bits)