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= 041032
(268 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 = 261 bits (666), Expect = 4e-70, Method: Compositional matrix adjust.
Identities = 135/266 (50%), Positives = 164/266 (61%), Gaps = 23/266 (8%)
Query: 26 RSMNNTMFVGDGIDRTIVTGHRNVPDGSTTSSPATFGVSGDGFWARDMTFENTAGPQKHE 85
+ N MF+GDG TI+T +NV DGSTT + AT G GF ARD+TF+NTAG KH+
Sbjct: 54 KKKKNIMFLGDGRTSTIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQ 113
Query: 86 AVALRVSSDLSMFYRCSFKDYQDTLFTLSLRQFYRDCQIYGTIDFIVGDAAAVFQNFDIF 145
AVALRV SDLS FYRC YQD+L+ S RQF+ +C I GT+DFI G+AA V Q+ DI
Sbjct: 114 AVALRVGSDLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIH 173
Query: 146 VRRPMHDQSNMVTAQGRDNPNENTGISIEGSRIRPAADL--------------------- 184
RRP Q NMVTAQGR +PN+NTGI I+ SRI +DL
Sbjct: 174 ARRPGSGQKNMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRT 233
Query: 185 --AATDLDGIIHPEGWIEWDGNFALSTLYYAEYLNAGLGAATANRVKWPGFHVLNNPQQA 242
+ + +I+P GW WDGNFAL TLYY EY N G GAAT+ RV W GF V+ + +A
Sbjct: 234 VVMQSSITNVINPAGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEA 293
Query: 243 APFTVTGFIQGDSWIPATGVPFWLGI 268
FT FI G SW+ AT PF LG+
Sbjct: 294 QGFTPGSFIAGGSWLKATTFPFSLGL 319
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 251 bits (641), Expect = 3e-67, Method: Compositional matrix adjust.
Identities = 129/274 (47%), Positives = 168/274 (61%), Gaps = 25/274 (9%)
Query: 20 HSQNNQRSMN--NTMFVGDGIDRTIVTGHRNVPDGSTTSSPATFGVSGDGFWARDMTFEN 77
+ +N + + N N M VGDG+ T +TG NV DGSTT AT G GF +D+ +N
Sbjct: 42 YKENVEVASNKMNLMIVGDGMYATTITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQN 101
Query: 78 TAGPQKHEAVALRVSSDLSMFYRCSFKDYQDTLFTLSLRQFYRDCQIYGTIDFIVGDAAA 137
TAGP K +AVALRV +D+S+ RC YQDTL+ S RQFYRD + GT+DFI G+AA
Sbjct: 102 TAGPAKDQAVALRVGADMSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAV 161
Query: 138 VFQNFDIFVRRPMHDQSNMVTAQGRDNPNENTGISIEGSRIRPAADLA------------ 185
VFQ + R+P Q NMVTAQGR +PN+ TG SI+ I ++DL
Sbjct: 162 VFQKCQLVARKPGKYQQNMVTAQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGR 221
Query: 186 -----------ATDLDGIIHPEGWIEWDGNFALSTLYYAEYLNAGLGAATANRVKWPGFH 234
+ L G+I+P GW EWDG+FAL TLYY E++N G GA T+ RVKWPG+H
Sbjct: 222 PWKEYSRTVVMESYLGGLINPAGWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYH 281
Query: 235 VLNNPQQAAPFTVTGFIQGDSWIPATGVPFWLGI 268
V+ +P +A PFTV IQG SW+ +TGV + G+
Sbjct: 282 VITDPAKAMPFTVAKLIQGGSWLRSTGVAYVDGL 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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 52/166 (31%), Positives = 75/166 (45%), Gaps = 21/166 (12%)
Query: 51 DGST--TSSPATFGVSGDGFWARDMTFEN--------------TAGPQKHEAVALRV--S 92
DGS T+ +T +S F A+ +T N ++ + +AVAL V S
Sbjct: 79 DGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVTKS 138
Query: 93 SDLSMFYRCSFKDYQDTLFTLSLRQFYRDCQIYGTIDFIVGDAAAVFQNFDIFVRRPMHD 152
D + F S YQDTL+ R F+ DC+I GT+DFI GD A+F N D+ R
Sbjct: 139 GDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADV 198
Query: 153 QSNMVT---AQGRDNPNENTGISIEGSRIRPAADLAATDLDGIIHP 195
+S V+ N N+ G+ I SR+ +D G+ P
Sbjct: 199 KSGNVSGYLTAPSTNINQKYGLVITNSRVIRESDSVPAKSYGLGRP 244
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 52/166 (31%), Positives = 75/166 (45%), Gaps = 21/166 (12%)
Query: 51 DGST--TSSPATFGVSGDGFWARDMTFEN--------------TAGPQKHEAVALRV--S 92
DGS T+ +T +S F A+ +T N ++ + +AVAL V S
Sbjct: 79 DGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVTKS 138
Query: 93 SDLSMFYRCSFKDYQDTLFTLSLRQFYRDCQIYGTIDFIVGDAAAVFQNFDIFVRRPMHD 152
D + F S YQDTL+ R F+ DC+I GT+DFI GD A+F N D+ R
Sbjct: 139 GDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADV 198
Query: 153 QSNMVT---AQGRDNPNENTGISIEGSRIRPAADLAATDLDGIIHP 195
+S V+ N N+ G+ I SR+ +D G+ P
Sbjct: 199 KSGNVSGYLTAPSTNINQKYGLVITNSRVIRESDSVPAKSYGLGRP 244
>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 = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 51/166 (30%), Positives = 74/166 (44%), Gaps = 21/166 (12%)
Query: 51 DGST--TSSPATFGVSGDGFWARDMTFEN--------------TAGPQKHEAVALRV--S 92
DGS T+ +T +S F A+ +T N ++ + +AVAL V S
Sbjct: 79 DGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVTKS 138
Query: 93 SDLSMFYRCSFKDYQDTLFTLSLRQFYRDCQIYGTIDFIVGDAAAVFQNFDIFVRRPMHD 152
D + F S YQ TL+ R F+ DC+I GT+DFI GD A+F N D+ R
Sbjct: 139 GDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRADV 198
Query: 153 QSNMVT---AQGRDNPNENTGISIEGSRIRPAADLAATDLDGIIHP 195
+S V+ N N+ G+ I SR+ +D G+ P
Sbjct: 199 KSGNVSGYLTAPSTNINQKYGLVITNSRVIRESDSVPAKSYGLGRP 244
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 53/110 (48%), Gaps = 17/110 (15%)
Query: 55 TSSPATFGVSGDGFWARDMTFENT-----------AGPQK---HEAVALRVS--SDLSMF 98
TS +T V+ F A ++T N P K +AVAL ++ SD + F
Sbjct: 111 TSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQAVALLLAENSDKARF 170
Query: 99 YRCSFKDYQDTLFTLS-LRQFYRDCQIYGTIDFIVGDAAAVFQNFDIFVR 147
+ YQDTL++ + R ++ DC+I G +DFI G VF N +I R
Sbjct: 171 KAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNIVAR 220
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 42/117 (35%), Gaps = 16/117 (13%)
Query: 59 ATFGVSGDGFWARDMTFENTAGPQ----KHEAVALRVSSDLSMFYRCSFKDYQDTLFTLS 114
A F +G +++T ENT G H AVALR D + Q+T F +
Sbjct: 194 AVFWSQNNGLQLQNLTIENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTN 253
Query: 115 L------------RQFYRDCQIYGTIDFIVGDAAAVFQNFDIFVRRPMHDQSNMVTA 159
R + I G +D + G A VF N + V Q V A
Sbjct: 254 SGVQNRLETNRQPRTLVTNSYIEGDVDIVSGRGAVVFDNTEFRVVNSRTQQEAYVFA 310
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 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,953,384
Number of Sequences: 62578
Number of extensions: 380910
Number of successful extensions: 633
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 620
Number of HSP's gapped (non-prelim): 12
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
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: 50 (23.9 bits)