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= 011204
(491 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 = 316 bits (809), Expect = 2e-86, Method: Compositional matrix adjust.
Identities = 169/350 (48%), Positives = 218/350 (62%), Gaps = 17/350 (4%)
Query: 68 NPIDDCWHCDPNWAANRQRLADCSVGFAQGTLGGKGGQIYVVTDSSDSDPANPTPGTLRH 127
NPID CW D NW NR +LADC+VGF T+GGKGG Y VT S+D +P NPTPGTLR+
Sbjct: 2 NPIDSCWRGDSNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVT-STDDNPVNPTPGTLRY 60
Query: 128 AVIQTEPIWITFASNMLIKLKHELIINSYKTIDGRGANVEITGNG--CLTLQYXXXXXXX 185
+ + +WI F+ NM IKLK L + +KTIDGRGA+V + GNG CL ++
Sbjct: 61 GATREKALWIIFSQNMNIKLKMPLYVAGHKTIDGRGADVHL-GNGGPCLFMRKVSHVILH 119
Query: 186 XXXXXXCKPS--GNTMIASS----PTHVGYRGKSDGDGISIFGSQKIWVDHCSLSYCTDG 239
C S G+ +++ S P H DGD I++ W+DH SLS C+DG
Sbjct: 120 SLHIHGCNTSVLGDVLVSESIGVEPVHA-----QDGDAITMRNVTNAWIDHNSLSDCSDG 174
Query: 240 LIDAIMGSTGITISNNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCR 299
LID +GSTGITISNN+F +H++VMLLGH+D Y D M+VT+AFN FG QRMPR R
Sbjct: 175 LIDVTLGSTGITISNNHFFNHHKVMLLGHDDTYDDDKSMKVTVAFNQFGPNAGQRMPRAR 234
Query: 300 RGYIHVVNNDFTSWEMYAIGGSANPTINSQGNRYTAPPDDNAKEVTKRVETDE-SEWAGW 358
G +HV NN++ W +YAIGGS+NPTI S+GN +TAP + KEVTKR+ + S A W
Sbjct: 235 YGLVHVANNNYDPWNIYAIGGSSNPTILSEGNSFTAPSESYKKEVTKRIGCESPSACANW 294
Query: 359 NWRTEGDVMVNGAFFVPSGAGLSTQ-YAKASSVEPKSAALIDQLTMNAGV 407
WR+ D +NGA+FV SG T Y + + ++ QLT NAGV
Sbjct: 295 VWRSTRDAFINGAYFVSSGKTEETNIYNSNEAFKVENGNAAPQLTKNAGV 344
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 75.9 bits (185), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 76/274 (27%), Positives = 116/274 (42%), Gaps = 56/274 (20%)
Query: 87 LADCSVGFA--------QGTLGGKGGQIYVVTDSSDSDPANPTPGTLRHAVIQTEPIWIT 138
L D VGFA +GT+GG GG+I V + + + G I
Sbjct: 2 LNDKPVGFASVPTADLPEGTVGGLGGEIVFVRTAEELEKYTTAEGKY----------VIV 51
Query: 139 FASNMLIKLKHELIINSYKTIDGRGANVEITGNGCLTLQYXXXXXXXXXXXXXCKPSGNT 198
++ + K E+ + S KTI G + +I G G + K + N
Sbjct: 52 VDGTIVFEPKREIKVLSDKTIVGIN-DAKIVGGGLV-----------------IKDAQNV 93
Query: 199 MIASSPTHVGY-----RGKS-DGDGISIFGSQKIWVDHCSLSYCTDGLIDAIMGSTGITI 252
+I + Y RGK D D I++ S IW+DH + DG +D S IT+
Sbjct: 94 IIRNIHFEGFYMEDDPRGKKYDFDYINVENSHHIWIDHITFVNGNDGAVDIKKYSNYITV 153
Query: 253 SNNYFSHHNEVMLLGHNDKYALDMGMQ---VTIAFNHFGVALVQRMPRCRRGYIHVVNND 309
S N F H++V L+G +DK + Q VT N+F L+QRMPR R G HV NN
Sbjct: 154 SWNKFVDHDKVSLVGSSDKEDPEQAGQAYKVTYHHNYFK-NLIQRMPRIRFGMAHVFNNF 212
Query: 310 FT----------SWEMYAIGGSANPTINSQGNRY 333
++ + +Y + + ++ +GN +
Sbjct: 213 YSMGLRTGVSGNVFPIYGVASAMGAKVHVEGNYF 246
>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 = 72.8 bits (177), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 64/213 (30%), Positives = 97/213 (45%), Gaps = 34/213 (15%)
Query: 222 GSQKIWVDHCSLS--------YCT---------DGLIDAIMGSTGITISNNYFSHHNEVM 264
G+ +W+DH ++S Y T DG +D GS +TISN+ H++ M
Sbjct: 151 GAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLIDQHDKTM 210
Query: 265 LLGHND-KYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDFTS-------WEMY 316
L+GHND A D G FN+ + +R PR R G IH NN F Y
Sbjct: 211 LIGHNDTNSAQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFNNVFKGDAKDPVYRYQY 270
Query: 317 AIGGSANPTINSQGNRYTAPPDDNAKEVTKRVETDESEWAGWNWRTEGDVMVNGAFFVPS 376
+ G + ++ S+GN +T + +A + K V+ ++ G + G V+ NG+ S
Sbjct: 271 SFGIGTSGSVLSEGNSFTI-ANLSASKACKVVK----KFNGSIFSDNGSVL-NGSAVDLS 324
Query: 377 GAGLSTQYAKAS---SVEPKSAALIDQLTMNAG 406
G G S +K V+P + L +T NAG
Sbjct: 325 GCGFSAYTSKIPYIYDVQPMTTELAQSITDNAG 357
>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 = 69.3 bits (168), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/213 (29%), Positives = 97/213 (45%), Gaps = 34/213 (15%)
Query: 222 GSQKIWVDHCSLS--------YCT---------DGLIDAIMGSTGITISNNYFSHHNEVM 264
G+ +W+DH ++S Y T DG +D GS +TISN+ H++ M
Sbjct: 151 GAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLIDQHDKTM 210
Query: 265 LLGHNDKY-ALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDFTS-------WEMY 316
L+GH+D + D G FN+ + +R PR R G IH NN F Y
Sbjct: 211 LIGHSDSNGSQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFNNVFKGDAKDPVYRYQY 270
Query: 317 AIGGSANPTINSQGNRYTAPPDDNAKEVTKRVETDESEWAGWNWRTEGDVMVNGAFFVPS 376
+ G + ++ S+GN +T + +A + K V+ ++ G + G V+ NG+ S
Sbjct: 271 SFGIGTSGSVLSEGNSFTI-ANLSASKACKVVK----KFNGSIFSDNGSVL-NGSAVDLS 324
Query: 377 GAGLSTQYAKAS---SVEPKSAALIDQLTMNAG 406
G G S +K V+P + L +T NAG
Sbjct: 325 GCGFSAYTSKIPYIYDVQPMTTELAQSITDNAG 357
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 71/146 (48%), Gaps = 25/146 (17%)
Query: 213 SDGDGISIFGSQKIWVDHCSLS-----------------YCTDGLIDAIMGSTGITISNN 255
S+ D ISI GS IW+DH + + DG +D S ITIS N
Sbjct: 187 SEYDSISIEGSSHIWIDHNTFTDGDHPDRSLGTYFGRPFQQHDGALDIKNSSDFITISYN 246
Query: 256 YFSHHNEVMLLGHNDKYALDMG-MQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDFTSWE 314
F++H++V L+G +D D G ++VT+ N++ + QR+PR R G +H+ NN +
Sbjct: 247 VFTNHDKVTLIGASDSRMADSGHLRVTLHHNYYK-NVTQRLPRVRFGQVHIYNNYYEFSN 305
Query: 315 M------YAIGGSANPTINSQGNRYT 334
+ YA G I +Q N ++
Sbjct: 306 LADYDFQYAWGVGVFSQIYAQNNYFS 331
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 63.2 bits (152), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 57/113 (50%), Gaps = 19/113 (16%)
Query: 216 DGISIFGSQKIWVDHCSLSYCT-----------------DGLIDAIMGSTGITISNNYFS 258
D I+I G IW+DHC+ + + DG DA G+ IT+S NY+
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 259 HHNEVMLLGHNDKYALDMG-MQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
H++ + G +D D G +++T+ N + +VQR PR R G +HV NN +
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYY 316
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 62.4 bits (150), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 37/113 (32%), Positives = 56/113 (49%), Gaps = 19/113 (16%)
Query: 216 DGISIFGSQKIWVDHCSLSYCT-----------------DGLIDAIMGSTGITISNNYFS 258
D I+I G IW+DHC+ + + DG DA G+ IT+S NY+
Sbjct: 184 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 243
Query: 259 HHNEVMLLGHNDKYALDMG-MQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
H+ + G +D D G +++T+ N + +VQR PR R G +HV NN +
Sbjct: 244 DHDASSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYY 295
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 61.6 bits (148), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 57/113 (50%), Gaps = 19/113 (16%)
Query: 216 DGISIFGSQKIWVDHCSLSYCT-----------------DGLIDAIMGSTGITISNNYFS 258
D I+I G IW+DHC+ + + DG DA G+ IT+S NY+
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 259 HHNEVMLLGHNDKYALDMG-MQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
H++ + G +D D G +++T+ N + +VQ+ PR R G +HV NN +
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQKAPRVRFGQVHVYNNYY 316
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 36/113 (31%), Positives = 56/113 (49%), Gaps = 19/113 (16%)
Query: 216 DGISIFGSQKIWVDHCSLSYCT-----------------DGLIDAIMGSTGITISNNYFS 258
D I+I G IW+DHC+ + + DG DA G+ IT+S NY+
Sbjct: 184 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 243
Query: 259 HHNEVMLLGHNDKYALDMG-MQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
H++ + G +D D G +++T+ N + +VQ PR R G +HV NN +
Sbjct: 244 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQAAPRVRFGQVHVYNNYY 295
>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 = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 40/117 (34%), Positives = 57/117 (48%), Gaps = 17/117 (14%)
Query: 210 RGKSDGDGISIFGSQ-----KIWVDH----CSLSYCT-------DGLIDAIMGSTGITIS 253
+G D D IS+ G+ KIWVDH SL+ C+ DG ID G +T+S
Sbjct: 108 QGGEDADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVS 167
Query: 254 NNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
NY ++ +V L G++D + + T N F + R+P RRG H+ NN F
Sbjct: 168 YNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRF-ENVESRVPLQRRGLSHIYNNYF 223
>pdb|1PCL|A Chain A, Unusual Structural Features In The Parallel Beta-Helix In
Pectate Lyases
Length = 355
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 41/144 (28%), Positives = 65/144 (45%), Gaps = 25/144 (17%)
Query: 216 DGISIFGSQKIWVDHCSLS--------YCT---------DGLIDAIMGSTGITISNNYFS 258
D I S +WVDH ++S Y T DG +D GS +TIS + F
Sbjct: 134 DAAVIDNSTNVWVDHVTISDGSFTDDKYTTKDGEKYVQHDGALDIKKGSDYVTISYSRFE 193
Query: 259 HHNEVMLLGHNDKYALDMGMQVTIAF-NHFGVALVQRMPRCRRGYIHVVNNDF------- 310
H++ +L+GH+D ++ + F N+ + +R PR R G IH NN +
Sbjct: 194 LHDKTILIGHSDSNGSQDSGKLRVTFHNNVFDRVTERAPRVRFGSIHAYNNVYLGDVKHS 253
Query: 311 TSWEMYAIGGSANPTINSQGNRYT 334
+Y+ G + +I S+ N +T
Sbjct: 254 VYPYLYSFGLGTSGSILSESNSFT 277
>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 = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 39/117 (33%), Positives = 56/117 (47%), Gaps = 17/117 (14%)
Query: 210 RGKSDGDGISIFGSQ-----KIWVDH----CSLSYCT-------DGLIDAIMGSTGITIS 253
+G D D IS+ G+ KIWVDH SL+ C+ DG ID G +T+S
Sbjct: 108 QGGEDADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVS 167
Query: 254 NNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
NY ++ +V L G++D + + T N F + R+P R G H+ NN F
Sbjct: 168 YNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRF-ENVESRVPLQRFGLSHIYNNYF 223
>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 = 51.6 bits (122), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 39/117 (33%), Positives = 56/117 (47%), Gaps = 17/117 (14%)
Query: 210 RGKSDGDGISIFGSQ-----KIWVDH----CSLSYCT-------DGLIDAIMGSTGITIS 253
+G D D IS+ G+ KIWVDH SL+ C+ DG ID G +T+S
Sbjct: 108 QGGEDADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVS 167
Query: 254 NNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
NY ++ +V L G++D + + T N F + R+P R G H+ NN F
Sbjct: 168 YNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRF-ENVESRVPLQRFGLSHIYNNYF 223
>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 = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 35/109 (32%), Positives = 54/109 (49%), Gaps = 14/109 (12%)
Query: 214 DGDGISIF---GSQKIWVDHCSL---------SYCTDGLIDAIMGSTGITISNNYFSHHN 261
+G+G +I S+ +W+DH S DGL+D + IT+S N F +H
Sbjct: 117 EGEGTAIEVTDDSKNVWIDHNEFYSEFPGNGDSDYYDGLVDMKRNAEYITVSWNKFENHW 176
Query: 262 EVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
+ ML+GH D +L ++T N+F L R+P R +H+ NN F
Sbjct: 177 KTMLVGHTDNASL-APDKITYHHNYFN-NLNSRVPLIRYADVHMFNNYF 223
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 54/122 (44%), Gaps = 19/122 (15%)
Query: 206 HVGYR--GKSDGDGISIFGSQKIWVDHCSL---SYCTDGL----------IDAIMGSTGI 250
+GY G DGD I + S +WVDH L ++ DG +D S +
Sbjct: 119 RIGYLPGGAKDGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTV 178
Query: 251 TISNNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
T+S NY +V L G + D G +T N++ + R+P R G +H NN +
Sbjct: 179 TVSYNYIHGVKKVGLDGSSSS---DTGRNITYHHNYYN-DVNARLPLQRGGLVHAYNNLY 234
Query: 311 TS 312
T+
Sbjct: 235 TN 236
>pdb|2EWE|A Chain A, Crystal Structure Of Pectate Lyase C R218k Mutant In
Complex With Pentagalacturonic Acid
Length = 353
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 54/122 (44%), Gaps = 19/122 (15%)
Query: 206 HVGYR--GKSDGDGISIFGSQKIWVDHCSL---SYCTDGL----------IDAIMGSTGI 250
+GY G DGD I + S +WVDH L ++ DG +D S +
Sbjct: 119 RIGYLPGGAKDGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTV 178
Query: 251 TISNNYFSHHNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCRRGYIHVVNNDF 310
T+S NY +V L G + D G +T N++ + ++P R G +H NN +
Sbjct: 179 TVSYNYIHGVKKVGLDGSSSS---DTGRNITYHHNYYN-DVNAKLPLQRGGLVHAYNNLY 234
Query: 311 TS 312
T+
Sbjct: 235 TN 236
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 60/135 (44%), Gaps = 27/135 (20%)
Query: 215 GDGISIFGSQKIWVDHCSLSYCTDGLIDAIMGSTG---ITISNNYFS------------H 259
GD I++ S +W+DH + + G ++G++ +TIS + H
Sbjct: 153 GDAITVDDSDLVWIDHVTTARI--GRQHIVLGTSADNRVTISYSLIDGRSDYSATCNGHH 210
Query: 260 HNEVMLLGHNDKYALDMGMQVTIAFNHFGVALVQRMPRCR-RGYIHVVNNDFTSWEMYAI 318
+ V L G ND VT+ N+F L RMP+ + +H VNN F +++ +A
Sbjct: 211 YWGVYLDGSND--------MVTLKGNYF-YNLSGRMPKVQGNTLLHAVNNLFHNFDGHAF 261
Query: 319 GGSANPTINSQGNRY 333
+ ++GN +
Sbjct: 262 EIGTGGYVLAEGNVF 276
>pdb|1ZTM|A Chain A, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
pdb|1ZTM|B Chain B, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
pdb|1ZTM|C Chain C, Structure Of The Uncleaved Paramyxovirus (hpiv3) Fusion
Protein
Length = 490
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 31/110 (28%), Positives = 40/110 (36%), Gaps = 16/110 (14%)
Query: 288 GVALVQRMPRCRRGYIH-----VVNNDFTSWEMYAIGG------SANPTINSQGNRYTAP 336
G L M C G I VV +D + GG + T N GNR P
Sbjct: 327 GFVLNHEMESCLSGNISQCPRTVVKSDIVPRYAFVNGGVVANCITTTCTCNGIGNRINQP 386
Query: 337 PDDNAKEVT-KRVETDESEWAGWNWRTEGDVMVNGAFFVPSGAGLSTQYA 385
PD K +T K T +N EG + AF+ P+ L+ A
Sbjct: 387 PDQGVKIITHKECNTIGINGMLFNTNKEGTL----AFYTPNDITLNNSVA 432
>pdb|3LHI|A Chain A, Crystal Structure Of Putative 6-
Phosphogluconolactonase(Yp_207848.1) From Neisseria
Gonorrhoeae Fa 1090 At 1.33 A Resolution
Length = 232
Score = 30.0 bits (66), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 31/81 (38%), Gaps = 11/81 (13%)
Query: 73 CWHCDPNWAANRQRLADCSVGFAQGTLGGKGGQIYVVTDSSDSDPANPTPGTLRHAVIQT 132
WH N A Q LAD QG L KGG + V+ +P +A+ Q
Sbjct: 4 VWHEYENAAEAAQSLADAVADALQGALDEKGGAVLAVSGGR-------SPIAFFNALSQK 56
Query: 133 EPIW----ITFASNMLIKLKH 149
+ W IT A ++ H
Sbjct: 57 DLDWKNVGITLADERIVPTNH 77
>pdb|3GBT|A Chain A, Crystal Structure Of Gluconate Kinase From Lactobacillus
Acidophilus
pdb|3LL3|A Chain A, The Crystal Structure Of Ligand Bound Xylulose Kinase From
Lactobacillus Acidophilus
pdb|3LL3|B Chain B, The Crystal Structure Of Ligand Bound Xylulose Kinase From
Lactobacillus Acidophilus
Length = 504
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 211 GKSDGDGISIFGSQKIWVDHCSLSYCTDGLIDAIMGSTGITISNNYFSH 259
G SDG +S G I DHC+L+ T G I I+ I S +YF +
Sbjct: 236 GASDG-YLSTIGVNAIDSDHCALNVGTSGAIRTIVDQPKIDPSASYFCY 283
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
0.318 0.134 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,381,314
Number of Sequences: 62578
Number of extensions: 530884
Number of successful extensions: 1158
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 1127
Number of HSP's gapped (non-prelim): 21
length of query: 491
length of database: 14,973,337
effective HSP length: 103
effective length of query: 388
effective length of database: 8,527,803
effective search space: 3308787564
effective search space used: 3308787564
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)