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= 023514
(281 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1PXZ|A Chain A, 1.7 Angstrom Crystal Structure Of Jun A 1, The Major
Allergen From Cedar Pollen
pdb|1PXZ|B Chain B, 1.7 Angstrom Crystal Structure Of Jun A 1, The Major
Allergen From Cedar Pollen
Length = 346
Score = 144 bits (363), Expect = 5e-35, Method: Compositional matrix adjust.
Identities = 98/268 (36%), Positives = 131/268 (48%), Gaps = 37/268 (13%)
Query: 9 VDSCLRA----------LAGQAEGFGRFAIGGLHGPVYFVTNLSDDG----PGSLREGCR 54
+DSC R LA A GFG +GG G Y VT+ D+ PG+LR G
Sbjct: 4 IDSCWRGDSNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVTSTDDNPVNPTPGTLRYGAT 63
Query: 55 RREPLWIVFEVSGTIHLSSYLSVSSYKTIDGRGQRIKLTGKG--LRLKECEHVII----- 107
R + LWI+F + I L L V+ +KTIDGRG + L G L +++ HVI+
Sbjct: 64 REKALWIIFSQNMNIKLKMPLYVAGHKTIDGRGADVHLGNGGPCLFMRKVSHVILHSLHI 123
Query: 108 --CNLEFEGG------------RGHDVDGIQIKPNSRHIWIDRCSLRDYDDGLIDITRQS 153
CN G D D I ++ N + WID SL D DGLID+T S
Sbjct: 124 HGCNTSVLGDVLVSESIGVEPVHAQDGDAITMR-NVTNAWIDHNSLSDCSDGLIDVTLGS 182
Query: 154 TDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLF-DGTRQRHPRLRFGKVHLYN 212
T IT+S +F H K ML+G D ++ D+ ++VT+ F QR PR R+G VH+ N
Sbjct: 183 TGITISNNHFFNHHKVMLLGHDDTYDDDKSMKVTVAFNQFGPNAGQRMPRARYGLVHVAN 242
Query: 213 NYTRNWGIYAVCASVESQIYSQCNIYEA 240
N W IYA+ S I S+ N + A
Sbjct: 243 NNYDPWNIYAIGGSSNPTILSEGNSFTA 270
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 110 bits (276), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 79/235 (33%), Positives = 117/235 (49%), Gaps = 34/235 (14%)
Query: 28 IGGLHGPVYFVTNLSDDGPGSLREGCRRREPLWIVFEVSGTIHLSSY--LSVSSYKTIDG 85
+GGL G + FV + + EG V V GTI + V S KTI G
Sbjct: 22 VGGLGGEIVFVRTAEELEKYTTAEGKY-------VIVVDGTIVFEPKREIKVLSDKTIVG 74
Query: 86 RGQRIKLTGKGLRLKECEHVIICNLEFEG--------GRGHDVDGIQIKPNSRHIWIDRC 137
K+ G GL +K+ ++VII N+ FEG G+ +D D I ++ NS HIWID
Sbjct: 75 INDA-KIVGGGLVIKDAQNVIIRNIHFEGFYMEDDPRGKKYDFDYINVE-NSHHIWIDHI 132
Query: 138 SLRDYDDGLIDITRQSTDITVSRCYFTQHDKTMLIGA----DPSHVGDRCIRVTIHHCLF 193
+ + +DG +DI + S ITVS F HDK L+G+ DP G + +VT HH F
Sbjct: 133 TFVNGNDGAVDIKKYSNYITVSWNKFVDHDKVSLVGSSDKEDPEQAG-QAYKVTYHHNYF 191
Query: 194 DGTRQRHPRLRFGKVHLYNNY----------TRNWGIYAVCASVESQIYSQCNIY 238
QR PR+RFG H++NN+ + IY V +++ ++++ + N +
Sbjct: 192 KNLIQRMPRIRFGMAHVFNNFYSMGLRTGVSGNVFPIYGVASAMGAKVHVEGNYF 246
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 107 bits (266), Expect = 9e-24, Method: Compositional matrix adjust.
Identities = 74/202 (36%), Positives = 96/202 (47%), Gaps = 41/202 (20%)
Query: 77 VSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNLEFE----------------GGRGHDV 120
V S +I G G+ K+ G G +K ++VII N+EFE G +
Sbjct: 130 VGSNTSIIGVGKDAKIKGGGFLIKNVDNVIIRNIEFEAPLDYFPEWDPTDGTLGEWNSEY 189
Query: 121 DGIQIKPNSRHIWIDRCSLRDYD-----------------DGLIDITRQSTDITVSRCYF 163
D I I+ S HIWID + D D DG +DI S IT+S F
Sbjct: 190 DSISIE-GSSHIWIDHNTFTDGDHPDRSLGTYFGRPFQQHDGALDIKNSSDFITISYNVF 248
Query: 164 TQHDKTMLIGADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYNNYTRNWGI-- 220
T HDK LIGA S + D +RVT+HH + QR PR+RFG+VH+YNNY +
Sbjct: 249 TNHDKVTLIGASDSRMADSGHLRVTLHHNYYKNVTQRLPRVRFGQVHIYNNYYEFSNLAD 308
Query: 221 ----YAVCASVESQIYSQCNIY 238
YA V SQIY+Q N +
Sbjct: 309 YDFQYAWGVGVFSQIYAQNNYF 330
>pdb|3VMV|A Chain A, Crystal Structure Of Pectate Lyase Bsp165pela From
Bacillus Sp. N165
pdb|3VMW|A Chain A, Crystal Structure Of Pectate Lyase Bsp165pela From
Bacillus Sp. N165 In Complex With Trigalacturonate
Length = 326
Score = 87.8 bits (216), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 53/180 (29%), Positives = 91/180 (50%), Gaps = 19/180 (10%)
Query: 82 TIDGRGQRIKLTGKGLRLKECEHVIICNLEFEGGRGHDVDGIQIKPNSRHIWIDRCSL-- 139
+I G G + G G+RL ++II N+ R + I++ +S+++WID
Sbjct: 82 SIIGVGTNGEFDGIGIRLSNAHNIIIQNVSIHHVREGEGTAIEVTDDSKNVWIDHNEFYS 141
Query: 140 -------RDYDDGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCI---RVTIH 189
DY DGL+D+ R + ITVS F H KTML+G H + + ++T H
Sbjct: 142 EFPGNGDSDYYDGLVDMKRNAEYITVSWNKFENHWKTMLVG----HTDNASLAPDKITYH 197
Query: 190 HCLFDGTRQRHPRLRFGKVHLYNNYTRNWGIYAVCASVESQIYSQCNIYE---AGQKKRT 246
H F+ R P +R+ VH++NNY ++ A+ + V ++++ + N ++ +GQ T
Sbjct: 198 HNYFNNLNSRVPLIRYADVHMFNNYFKDINDTAINSRVGARVFVENNYFDNVGSGQADPT 257
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 61/211 (28%), Positives = 93/211 (44%), Gaps = 53/211 (25%)
Query: 75 LSVSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNLEFE----------------GGRGH 118
+ + + TI G G K+ G ++K ++VII N+EF+ G
Sbjct: 144 VDIPANTTIVGSGTNAKVVGGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNS 202
Query: 119 DVDGIQIKPNSRHIWIDRCSLRD-----------------YDDGLIDITRQSTDITVSRC 161
D I I HIWID C+ D + DG D + + IT+S
Sbjct: 203 QYDNITIN-GGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYN 261
Query: 162 YFTQHDKTMLIGADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYNNY------ 214
Y+ HDK+ + G+ S D +++T+HH + QR PR+RFG+VH+YNNY
Sbjct: 262 YYHDHDKSSIFGSSDSKTSDDGKLKITLHHNRYKNIVQRAPRVRFGQVHVYNNYYEGSTS 321
Query: 215 ------TRNWGIYAVCASVESQIYSQCNIYE 239
+ WGI S+IY+Q N+ +
Sbjct: 322 SSSYPFSYAWGI-----GKSSKIYAQNNVID 347
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 84.7 bits (208), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 60/211 (28%), Positives = 93/211 (44%), Gaps = 53/211 (25%)
Query: 75 LSVSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNLEFE----------------GGRGH 118
+ + + TI G G K+ G ++K ++VII N+EF+ G
Sbjct: 144 VDIPANTTIVGSGTNAKVVGGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNS 202
Query: 119 DVDGIQIKPNSRHIWIDRCSLRD-----------------YDDGLIDITRQSTDITVSRC 161
D I I HIWID C+ D + DG D + + IT+S
Sbjct: 203 QYDNITIN-GGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYN 261
Query: 162 YFTQHDKTMLIGADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYNNY------ 214
Y+ HDK+ + G+ S D +++T+HH + Q+ PR+RFG+VH+YNNY
Sbjct: 262 YYHDHDKSSIFGSSDSKTSDDGKLKITLHHNRYKNIVQKAPRVRFGQVHVYNNYYEGSTS 321
Query: 215 ------TRNWGIYAVCASVESQIYSQCNIYE 239
+ WGI S+IY+Q N+ +
Sbjct: 322 SSSYPFSYAWGI-----GKSSKIYAQNNVID 347
>pdb|1PCL|A Chain A, Unusual Structural Features In The Parallel Beta-Helix In
Pectate Lyases
Length = 355
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 68/243 (27%), Positives = 103/243 (42%), Gaps = 49/243 (20%)
Query: 15 ALAGQAEGFGRFAIGGLHGPVYFVTNLSDDGPGSLREGCRRREPLWIVFEVSGTIHLS-- 72
A G A G G V N+SD ++ + + +V+G I +S
Sbjct: 7 ATTGWATQNGGTTGGAKAAKAVEVKNISD-----FKKALNGTDSSAKIIKVTGPIDISGG 61
Query: 73 ------------SYLSVSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNL---------- 110
S +S+ S TI G G K T L +K ++VI+ NL
Sbjct: 62 KAYTSFDDQKARSQISIPSNTTIIGVGSNGKFTNGSLVIKGVKNVILRNLYIETPVDVAP 121
Query: 111 EFEGGRGHDVD-GIQIKPNSRHIWIDRCSLRDYD-----------------DGLIDITRQ 152
+E G G + + + NS ++W+D ++ D DG +DI +
Sbjct: 122 HYESGDGWNAEWDAAVIDNSTNVWVDHVTISDGSFTDDKYTTKDGEKYVQHDGALDIKKG 181
Query: 153 STDITVSRCYFTQHDKTMLIGADPSHVGDRC--IRVTIHHCLFDGTRQRHPRLRFGKVHL 210
S +T+S F HDKT+LIG S+ +RVT H+ +FD +R PR+RFG +H
Sbjct: 182 SDYVTISYSRFELHDKTILIGHSDSNGSQDSGKLRVTFHNNVFDRVTERAPRVRFGSIHA 241
Query: 211 YNN 213
YNN
Sbjct: 242 YNN 244
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 83.6 bits (205), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 60/209 (28%), Positives = 92/209 (44%), Gaps = 53/209 (25%)
Query: 75 LSVSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNLEFE----------------GGRGH 118
+ + + TI G G K+ G ++K ++VII N+EF+ G
Sbjct: 123 VDIPANTTIVGSGTNAKVVGGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTAGSSGNWAS 181
Query: 119 DVDGIQIKPNSRHIWIDRCSLRD-----------------YDDGLIDITRQSTDITVSRC 161
D I I + HIWID C+ D + DG D + + IT+S
Sbjct: 182 QYDNITINGGT-HIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYN 240
Query: 162 YFTQHDKTMLIGADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYNNY------ 214
Y+ HD + + G+ S D +++T+HH + QR PR+RFG+VH+YNNY
Sbjct: 241 YYHDHDASSIFGSSDSKTSDDGKLKITLHHNRYKNIVQRAPRVRFGQVHVYNNYYEGSTS 300
Query: 215 ------TRNWGIYAVCASVESQIYSQCNI 237
+ WGI S+IY+Q N+
Sbjct: 301 SSSYPFSYAWGI-----GKSSKIYAQNNV 324
>pdb|2NZM|A Chain A, Hexasaccharide I Bound To Bacillus Subtilis Pectate Lyase
pdb|2O04|A Chain A, Pectate Lyase Bound To Hexasaccharide Compound Ii
pdb|2O0V|A Chain A, Pectate Lyase Bound To Hexasaccharide Compound Iii
pdb|2O0W|A Chain A, Pectate Lyase Bound To Hexasaccharide Compound Iv
pdb|2O17|A Chain A, Pectate Lyase Bound To Hexasaccharide
pdb|2O1D|A Chain A, Pectate Lyase Bound To Trisaccharide
Length = 399
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 60/208 (28%), Positives = 93/208 (44%), Gaps = 51/208 (24%)
Query: 75 LSVSSYKTIDGRGQRIKLTGKGLRLKECEHVIICNLEFEGG-----RGHDVDGIQIKPNS 129
+ + + TI G G K+ G ++K ++VII N+EF+ + DG NS
Sbjct: 123 VDIPANTTIVGSGTNAKVVGGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNS 181
Query: 130 R----------HIWIDRCSLRD-----------------YDDGLIDITRQSTDITVSRCY 162
+ HIWID C+ D + DG D + + IT+S Y
Sbjct: 182 QYDNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNY 241
Query: 163 FTQHDKTMLIGADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYNNY------- 214
+ HDK+ + G+ S D +++T+HH + Q PR+RFG+VH+YNNY
Sbjct: 242 YHDHDKSSIFGSSDSKTSDDGKLKITLHHNRYKNIVQAAPRVRFGQVHVYNNYYEGSTSS 301
Query: 215 -----TRNWGIYAVCASVESQIYSQCNI 237
+ WGI S+IY+Q N+
Sbjct: 302 SSYPFSYAWGI-----GKSSKIYAQNNV 324
>pdb|1JRG|A Chain A, Crystal Structure Of The R3 Form Of Pectate Lyase A,
Erwinia Chrysanthemi
pdb|1JRG|B Chain B, Crystal Structure Of The R3 Form Of Pectate Lyase A,
Erwinia Chrysanthemi
pdb|1JTA|A Chain A, Crystal Structure Of Pectate Lyase A (C2 Form)
Length = 361
Score = 76.3 bits (186), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 63/241 (26%), Positives = 104/241 (43%), Gaps = 54/241 (22%)
Query: 21 EGFGRFAIGGLHGPVYFVTNLSDDGPGSLREGCRRREPLWIVFEVSGTIHLS-------- 72
GF +Y VTN+S+ +L G + + ++ GTI +S
Sbjct: 21 NGFTTGGAAATSDNIYIVTNISE-FTSALSAGAEAK-----IIQIKGTIDISGGTPYTDF 74
Query: 73 ------SYLSVSSYKTIDGRGQRIKLTGKGLRLKECE---HVIICNL----------EFE 113
S +++ + T+ G G K L + + +VII N+ +E
Sbjct: 75 ADQKARSQINIPANTTVIGLGTDAKFINGSLIIDGTDGTNNVIIRNVYIQTPIDVEPHYE 134
Query: 114 GGRGHDV--DGIQIKPNSRHIWIDRCSLRDYD-----------------DGLIDITRQST 154
G G + D + I + H+WID ++ D + DG +DI R S
Sbjct: 135 KGDGWNAEWDAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSD 194
Query: 155 DITVSRCYFTQHDKTMLIG-ADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYN 212
+T+S QHDKTMLIG D + D+ + VT+ + +F+ +R PR+R+G +H +N
Sbjct: 195 YVTISNSLIDQHDKTMLIGHNDTNSAQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFN 254
Query: 213 N 213
N
Sbjct: 255 N 255
>pdb|1OOC|A Chain A, Mutations In The T1.5 Loop Of Pectate Lyase A
pdb|1OOC|B Chain B, Mutations In The T1.5 Loop Of Pectate Lyase A
pdb|1PE9|A Chain A, Mutations In The T1.5 Loop Of Pectate Lyase A
pdb|1PE9|B Chain B, Mutations In The T1.5 Loop Of Pectate Lyase A
Length = 361
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 63/241 (26%), Positives = 105/241 (43%), Gaps = 54/241 (22%)
Query: 21 EGFGRFAIGGLHGPVYFVTNLSDDGPGSLREGCRRREPLWIVFEVSGTIHLS-------- 72
GF +Y VTN+S+ +L G + + ++ GTI +S
Sbjct: 21 NGFTTGGAAATSDNIYIVTNISE-FTSALSAGAEAK-----IIQIKGTIDISGGTPYTDF 74
Query: 73 ------SYLSVSSYKTIDGRGQRIKLTGKGLRLKECE---HVIICNL----------EFE 113
S +++ + T+ G G K L + + +VII N+ +E
Sbjct: 75 ADQKARSQINIPANTTVIGLGTDAKFINGSLIIDGTDGTNNVIIRNVYIQTPIDVEPHYE 134
Query: 114 GGRGHDV--DGIQIKPNSRHIWIDRCSLRDYD-----------------DGLIDITRQST 154
G G + D + I + H+WID ++ D + DG +DI R S
Sbjct: 135 KGDGWNAEWDAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSD 194
Query: 155 DITVSRCYFTQHDKTMLIG-ADPSHVGDRC-IRVTIHHCLFDGTRQRHPRLRFGKVHLYN 212
+T+S QHDKTMLIG +D + D+ + VT+ + +F+ +R PR+R+G +H +N
Sbjct: 195 YVTISNSLIDQHDKTMLIGHSDSNGSQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFN 254
Query: 213 N 213
N
Sbjct: 255 N 255
>pdb|2QXZ|A Chain A, Pectate Lyase R236f From Xanthomonas Campestris
pdb|2QXZ|B Chain B, Pectate Lyase R236f From Xanthomonas Campestris
Length = 330
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 63/141 (44%), Gaps = 21/141 (14%)
Query: 96 GLRLKECEH-VIICNLE---FEGGRGHDVDGIQIKPNSR----HIWID---------RCS 138
G+R+ H VII N+ +GG D D I ++ NS IW+D +CS
Sbjct: 87 GIRVVGNAHNVIIQNMTIGLLQGGE--DADSISLEGNSSGEPSKIWVDHNTVFASLTKCS 144
Query: 139 -LRDYD-DGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLFDGT 196
D DG ID+ + +TVS Y + K L G S + R T HH F+
Sbjct: 145 GAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFENV 204
Query: 197 RQRHPRLRFGKVHLYNNYTRN 217
R P RFG H+YNNY N
Sbjct: 205 ESRVPLQRFGLSHIYNNYFNN 225
>pdb|2QY1|A Chain A, Pectate Lyase A31g/r236f From Xanthomonas Campestris
pdb|2QY1|B Chain B, Pectate Lyase A31g/r236f From Xanthomonas Campestris
Length = 330
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 48/141 (34%), Positives = 63/141 (44%), Gaps = 21/141 (14%)
Query: 96 GLRLKECEH-VIICNLE---FEGGRGHDVDGIQIKPNSR----HIWID---------RCS 138
G+R+ H VII N+ +GG D D I ++ NS IW+D +CS
Sbjct: 87 GIRVVGNAHNVIIQNMTIGLLQGGE--DADSISLEGNSSGEPSKIWVDHNTVFASLTKCS 144
Query: 139 -LRDYD-DGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLFDGT 196
D DG ID+ + +TVS Y + K L G S + R T HH F+
Sbjct: 145 GAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFENV 204
Query: 197 RQRHPRLRFGKVHLYNNYTRN 217
R P RFG H+YNNY N
Sbjct: 205 ESRVPLQRFGLSHIYNNYFNN 225
>pdb|2QX3|A Chain A, Structure Of Pectate Lyase Ii From Xanthomonas Campestris
Pv. Campestris Str. Atcc 33913
pdb|2QX3|B Chain B, Structure Of Pectate Lyase Ii From Xanthomonas Campestris
Pv. Campestris Str. Atcc 33913
Length = 330
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 47/141 (33%), Positives = 62/141 (43%), Gaps = 21/141 (14%)
Query: 96 GLRLKECEH-VIICNLE---FEGGRGHDVDGIQIKPNSR----HIWID---------RCS 138
G+R+ H VII N+ +GG D D I ++ NS IW+D +CS
Sbjct: 87 GIRVVGNAHNVIIQNMTIGLLQGGE--DADSISLEGNSSGEPSKIWVDHNTVFASLTKCS 144
Query: 139 -LRDYD-DGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLFDGT 196
D DG ID+ + +TVS Y + K L G S + R T HH F+
Sbjct: 145 GAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFENV 204
Query: 197 RQRHPRLRFGKVHLYNNYTRN 217
R P R G H+YNNY N
Sbjct: 205 ESRVPLQRRGLSHIYNNYFNN 225
>pdb|1PLU|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi With 1 Lu+3 Ion
In The Putative Calcium Binding Site
pdb|1O88|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
30mm Ca2+
pdb|1O8D|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
5mm Ca2+
pdb|1O8E|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 11.2 With
1mm Ca2+
pdb|1O8F|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
30mm Ca2+
pdb|1O8G|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
5mm Ca2+
pdb|1O8H|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
0.3mm Ca2+ Added
pdb|1O8I|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 9.5 With
No Ca2+ Added
pdb|1O8J|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
30mm Ca2+
pdb|1O8K|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
20mm Ca2+
pdb|1O8L|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
5mm Ca2+
pdb|1O8M|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi At Ph 4.5 With
No Ca2+ Added
pdb|1AIR|A Chain A, Pectate Lyase C From Erwinia Chrysanthemi (Ec16) To A
Resolution Of 2.2 Angstroms With 128 Waters
pdb|2PEC|A Chain A, The Refined Three-Dimensional Structure Of Pectate Lyase C
From Erwinia Chrysanthemi At 2.2 Angstroms Resolution:
Implications For An Enzymatic Mechanism
Length = 353
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 59/137 (43%), Gaps = 19/137 (13%)
Query: 96 GLRLKECEHVIICNLE--FEGGRGHDVDGIQIKPNSRHIWIDRCSL----------RDYD 143
G+ +K+ V++ N+ + G D D I++ +S ++W+D L D D
Sbjct: 104 GIWIKKSSDVVVQNMRIGYLPGGAKDGDMIRVD-DSPNVWVDHNELFAANHECDGTPDND 162
Query: 144 ---DGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLFDGTRQRH 200
+ +DI S +TVS Y K +G D S D +T HH ++ R
Sbjct: 163 TTFESAVDIKGASNTVTVSYNYIHGVKK---VGLDGSSSSDTGRNITYHHNYYNDVNARL 219
Query: 201 PRLRFGKVHLYNNYTRN 217
P R G VH YNN N
Sbjct: 220 PLQRGGLVHAYNNLYTN 236
>pdb|2EWE|A Chain A, Crystal Structure Of Pectate Lyase C R218k Mutant In
Complex With Pentagalacturonic Acid
Length = 353
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 38/137 (27%), Positives = 59/137 (43%), Gaps = 19/137 (13%)
Query: 96 GLRLKECEHVIICNLE--FEGGRGHDVDGIQIKPNSRHIWIDRCSL----------RDYD 143
G+ +K+ V++ N+ + G D D I++ +S ++W+D L D D
Sbjct: 104 GIWIKKSSDVVVQNMRIGYLPGGAKDGDMIRVD-DSPNVWVDHNELFAANHECDGTPDND 162
Query: 144 ---DGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCLFDGTRQRH 200
+ +DI S +TVS Y K +G D S D +T HH ++ +
Sbjct: 163 TTFESAVDIKGASNTVTVSYNYIHGVKK---VGLDGSSSSDTGRNITYHHNYYNDVNAKL 219
Query: 201 PRLRFGKVHLYNNYTRN 217
P R G VH YNN N
Sbjct: 220 PLQRGGLVHAYNNLYTN 236
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 35/123 (28%), Positives = 59/123 (47%), Gaps = 30/123 (24%)
Query: 75 LSVSSYKTIDGRGQRIKLTGKGLR-LKECEHVIICNLEFEGGRGHDVDGIQIKPNSRHIW 133
++V+S K+I G+G + + GKGLR + ++VII N+ D+ N +++W
Sbjct: 104 ITVNSNKSIVGQGTKGVIKGKGLRVVSGAKNVIIQNIAVT-----DI-------NPKYVW 151
Query: 134 -IDRCSLRDYDDGLIDITRQSTDITVSRCYFTQHDKTMLIGADPSHVGDRCIRVTIHHCL 192
D ++ D D ID +T +R QH +++G + RVTI + L
Sbjct: 152 GGDAITVDDSDLVWID------HVTTARI-GRQH---IVLGTSADN------RVTISYSL 195
Query: 193 FDG 195
DG
Sbjct: 196 IDG 198
>pdb|2HW2|A Chain A, Crystal Structure Of Rifampin Adp-Ribosyl Transferase In
Complex With Rifampin
Length = 143
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 21 EGFGRFAIGGLHGPVYFVTNLSDDG-PGSLREGCRRREPLWIVFEVS 66
EG GR I G + N++D PG+ R REP+WIV E++
Sbjct: 67 EGRGRIFIVEPEGAIEDDPNVTDKKLPGNPTRSYRTREPVWIVGELT 113
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
0.326 0.142 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,108,145
Number of Sequences: 62578
Number of extensions: 391073
Number of successful extensions: 960
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 919
Number of HSP's gapped (non-prelim): 20
length of query: 281
length of database: 14,973,337
effective HSP length: 98
effective length of query: 183
effective length of database: 8,840,693
effective search space: 1617846819
effective search space used: 1617846819
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)