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= 010437
(510 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 = 340 bits (873), Expect = 8e-94, Method: Compositional matrix adjust.
Identities = 166/314 (52%), Positives = 217/314 (69%), Gaps = 14/314 (4%)
Query: 161 NPIDDCWRCDGNWHKNRKRLADCGIGFGRNAIGGRDGRFYVVTDPRDDDPVNPKPGTLRH 220
NPID CWR D NW +NR +LADC +GFG + +GG+ G FY VT DD+PVNP PGTLR+
Sbjct: 2 NPIDSCWRGDSNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVTS-TDDNPVNPTPGTLRY 60
Query: 221 AVIQDKPLWIVFKRDMVIQLKQELIVNSFKTIDGRGANVHIANGG-CITIQFVTNVIIHG 279
++K LWI+F ++M I+LK L V KTIDGRGA+VH+ NGG C+ ++ V++VI+H
Sbjct: 61 GATREKALWIIFSQNMNIKLKMPLYVAGHKTIDGRGADVHLGNGGPCLFMRKVSHVILHS 120
Query: 280 LHVHDCKPT--GNAMVRSS----PTHYGWRTVADGDAISIFGSSHIWIDHNSLSHCADGL 333
LH+H C + G+ +V S P H DGDAI++ ++ WIDHNSLS C+DGL
Sbjct: 121 LHIHGCNTSVLGDVLVSESIGVEPVH-----AQDGDAITMRNVTNAWIDHNSLSDCSDGL 175
Query: 334 VDAVMGSTAITISNNHMTHHNEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCRH 393
+D +GST ITISNNH +H++VMLLGH D+Y DK M+VT+A+N FG QRMPR R+
Sbjct: 176 IDVTLGSTGITISNNHFFNHHKVMLLGHDDTYDDDKSMKVTVAFNQFGPNAGQRMPRARY 235
Query: 394 GYFHVVNNDYTHWEMYAIGGSANPTINSQGNRYNAPLNAFAKEVTKRVD-TAASQWKGWN 452
G HV NN+Y W +YAIGGS+NPTI S+GN + AP ++ KEVTKR+ + S W
Sbjct: 236 GLVHVANNNYDPWNIYAIGGSSNPTILSEGNSFTAPSESYKKEVTKRIGCESPSACANWV 295
Query: 453 WRSEGDLLLNGAYF 466
WRS D +NGAYF
Sbjct: 296 WRSTRDAFINGAYF 309
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 83.6 bits (205), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 68/210 (32%), Positives = 99/210 (47%), Gaps = 26/210 (12%)
Query: 230 IVFKRDMVIQLKQELIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTG 289
IV +V + K+E+ V S KTI G N GG + I+ NVII +H
Sbjct: 50 IVVDGTIVFEPKREIKVLSDKTI--VGINDAKIVGGGLVIKDAQNVIIRNIHFEGF---- 103
Query: 290 NAMVRSSPTHYGWRTVADGDAISIFGSSHIWIDHNSLSHCADGLVDAVMGSTAITISNNH 349
+ P + D D I++ S HIWIDH + + DG VD S IT+S N
Sbjct: 104 --YMEDDPRGKKY----DFDYINVENSHHIWIDHITFVNGNDGAVDIKKYSNYITVSWNK 157
Query: 350 MTHHNEVMLLGHSDSYTRDKQMQ---VTIAYNHFGEGLIQRMPRCRHGYFHVVNNDYTH- 405
H++V L+G SD ++ Q VT +N+F + LIQRMPR R G HV NN Y+
Sbjct: 158 FVDHDKVSLVGSSDKEDPEQAGQAYKVTYHHNYF-KNLIQRMPRIRFGMAHVFNNFYSMG 216
Query: 406 ---------WEMYAIGGSANPTINSQGNRY 426
+ +Y + + ++ +GN +
Sbjct: 217 LRTGVSGNVFPIYGVASAMGAKVHVEGNYF 246
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 78.6 bits (192), Expect = 8e-15, Method: Compositional matrix adjust.
Identities = 61/178 (34%), Positives = 88/178 (49%), Gaps = 22/178 (12%)
Query: 244 LIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWR 303
+ V S +I G G + I GG + I+ V NVII + + T W
Sbjct: 128 VYVGSNTSIIGVGKDAKIKGGGFL-IKNVDNVIIRNIEFEAPLDYFPEWDPTDGTLGEWN 186
Query: 304 TVADGDAISIFGSSHIWIDHNSLS-----------------HCADGLVDAVMGSTAITIS 346
+ + D+ISI GSSHIWIDHN+ + DG +D S ITIS
Sbjct: 187 S--EYDSISIEGSSHIWIDHNTFTDGDHPDRSLGTYFGRPFQQHDGALDIKNSSDFITIS 244
Query: 347 NNHMTHHNEVMLLGHSDSYTRDK-QMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDY 403
N T+H++V L+G SDS D ++VT+ +N++ + + QR+PR R G H+ NN Y
Sbjct: 245 YNVFTNHDKVTLIGASDSRMADSGHLRVTLHHNYY-KNVTQRLPRVRFGQVHIYNNYY 301
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 64/224 (28%), Positives = 105/224 (46%), Gaps = 50/224 (22%)
Query: 239 QLKQELIVNSFKTIDGRGANVHIANGGCIT--IQFVTNVIIHGLHVH---DCKPTGNAMV 293
+ + ++ + + T+ G G + NG I NVII +++ D +P
Sbjct: 78 KARSQINIPANTTVIGLGTDAKFINGSLIIDGTDGTNNVIIRNVYIQTPIDVEP------ 131
Query: 294 RSSPTHY----GWRTVADGDAISIF-GSSHIWIDHNSLSHCA-----------------D 331
HY GW A+ DA++I G+ H+WIDH ++S D
Sbjct: 132 -----HYEKGDGWN--AEWDAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHD 184
Query: 332 GLVDAVMGSTAITISNNHMTHHNEVMLLGHSDSY-TRDK-QMQVTIAYNHFGEGLIQRMP 389
G +D GS +TISN+ + H++ ML+GHSDS ++DK ++ VT+ N F + +R P
Sbjct: 185 GALDIKRGSDYVTISNSLIDQHDKTMLIGHSDSNGSQDKGKLHVTLFNNVFNR-VTERAP 243
Query: 390 RCRHGYFHVVNN-------DYTHWEMYAIGGSANPTINSQGNRY 426
R R+G H NN D + Y+ G + ++ S+GN +
Sbjct: 244 RVRYGSIHSFNNVFKGDAKDPVYRYQYSFGIGTSGSVLSEGNSF 287
>pdb|1PCL|A Chain A, Unusual Structural Features In The Parallel Beta-Helix In
Pectate Lyases
Length = 355
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 63/221 (28%), Positives = 104/221 (47%), Gaps = 48/221 (21%)
Query: 239 QLKQELIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVH---DCKPTGNAMVRS 295
+ + ++ + S TI G G+N NG + I+ V NVI+ L++ D P
Sbjct: 71 KARSQISIPSNTTIIGVGSNGKFTNGSLV-IKGVKNVILRNLYIETPVDVAP-------- 121
Query: 296 SPTHY----GWRTVADGDAISIFGSSHIWIDHNSLSHCA-----------------DGLV 334
HY GW A+ DA I S+++W+DH ++S + DG +
Sbjct: 122 ---HYESGDGWN--AEWDAAVIDNSTNVWVDHVTISDGSFTDDKYTTKDGEKYVQHDGAL 176
Query: 335 DAVMGSTAITISNNHMTHHNEVMLLGHSDSY-TRDK-QMQVTIAYNHFGEGLIQRMPRCR 392
D GS +TIS + H++ +L+GHSDS ++D +++VT N F + + +R PR R
Sbjct: 177 DIKKGSDYVTISYSRFELHDKTILIGHSDSNGSQDSGKLRVTFHNNVF-DRVTERAPRVR 235
Query: 393 HGYFHVVNNDY-------THWEMYAIGGSANPTINSQGNRY 426
G H NN Y + +Y+ G + +I S+ N +
Sbjct: 236 FGSIHAYNNVYLGDVKHSVYPYLYSFGLGTSGSILSESNSF 276
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 69.7 bits (169), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 62/213 (29%), Positives = 97/213 (45%), Gaps = 30/213 (14%)
Query: 251 TIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDA 310
TI G G N + GG I+ NVII + D + + W + D
Sbjct: 151 TIVGSGTNAKVV-GGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDN-- 206
Query: 311 ISIFGSSHIWIDHNSLSHCA-----------------DGLVDAVMGSTAITISNNHMTHH 353
I+I G +HIWIDH + + + DG DA G+ IT+S N+ H
Sbjct: 207 ITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDH 266
Query: 354 NEVMLLGHSDSYTRDK-QMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDY-------TH 405
++ + G SDS T D ++++T+ +N + + ++QR PR R G HV NN Y ++
Sbjct: 267 DKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYYEGSTSSSSY 325
Query: 406 WEMYAIGGSANPTINSQGNRYNAPLNAFAKEVT 438
YA G + I +Q N + P + AK ++
Sbjct: 326 PFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 358
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 68.9 bits (167), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 62/213 (29%), Positives = 97/213 (45%), Gaps = 30/213 (14%)
Query: 251 TIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDA 310
TI G G N + GG I+ NVII + D ++ + W + D
Sbjct: 130 TIVGSGTNAKVV-GGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTAGSSGNWASQYDN-- 185
Query: 311 ISIFGSSHIWIDHNSLSHCA-----------------DGLVDAVMGSTAITISNNHMTHH 353
I+I G +HIWIDH + + + DG DA G+ IT+S N+ H
Sbjct: 186 ITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDH 245
Query: 354 NEVMLLGHSDSYTRDK-QMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDY-------TH 405
+ + G SDS T D ++++T+ +N + + ++QR PR R G HV NN Y ++
Sbjct: 246 DASSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYYEGSTSSSSY 304
Query: 406 WEMYAIGGSANPTINSQGNRYNAPLNAFAKEVT 438
YA G + I +Q N + P + AK ++
Sbjct: 305 PFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 337
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 68.6 bits (166), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 61/213 (28%), Positives = 97/213 (45%), Gaps = 30/213 (14%)
Query: 251 TIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDA 310
TI G G N + GG I+ NVII + D + + W + D
Sbjct: 151 TIVGSGTNAKVV-GGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDN-- 206
Query: 311 ISIFGSSHIWIDHNSLSHCA-----------------DGLVDAVMGSTAITISNNHMTHH 353
I+I G +HIWIDH + + + DG DA G+ IT+S N+ H
Sbjct: 207 ITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDH 266
Query: 354 NEVMLLGHSDSYTRDK-QMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDY-------TH 405
++ + G SDS T D ++++T+ +N + + ++Q+ PR R G HV NN Y ++
Sbjct: 267 DKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQKAPRVRFGQVHVYNNYYEGSTSSSSY 325
Query: 406 WEMYAIGGSANPTINSQGNRYNAPLNAFAKEVT 438
YA G + I +Q N + P + AK ++
Sbjct: 326 PFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 358
>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 = 68.2 bits (165), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 62/224 (27%), Positives = 105/224 (46%), Gaps = 50/224 (22%)
Query: 239 QLKQELIVNSFKTIDGRGANVHIANGGCIT--IQFVTNVIIHGLHVH---DCKPTGNAMV 293
+ + ++ + + T+ G G + NG I NVII +++ D +P
Sbjct: 78 KARSQINIPANTTVIGLGTDAKFINGSLIIDGTDGTNNVIIRNVYIQTPIDVEP------ 131
Query: 294 RSSPTHY----GWRTVADGDAISIF-GSSHIWIDHNSLSHCA-----------------D 331
HY GW A+ DA++I G+ H+WIDH ++S D
Sbjct: 132 -----HYEKGDGWN--AEWDAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHD 184
Query: 332 GLVDAVMGSTAITISNNHMTHHNEVMLLGHSDSYT-RDK-QMQVTIAYNHFGEGLIQRMP 389
G +D GS +TISN+ + H++ ML+GH+D+ + +DK ++ VT+ N F + +R P
Sbjct: 185 GALDIKRGSDYVTISNSLIDQHDKTMLIGHNDTNSAQDKGKLHVTLFNNVFNR-VTERAP 243
Query: 390 RCRHGYFHVVNN-------DYTHWEMYAIGGSANPTINSQGNRY 426
R R+G H NN D + Y+ G + ++ S+GN +
Sbjct: 244 RVRYGSIHSFNNVFKGDAKDPVYRYQYSFGIGTSGSVLSEGNSF 287
>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 = 66.6 bits (161), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 61/213 (28%), Positives = 96/213 (45%), Gaps = 30/213 (14%)
Query: 251 TIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDA 310
TI G G N + GG I+ NVII + D + + W + D
Sbjct: 130 TIVGSGTNAKVV-GGNFQIK-SDNVIIRNIEFQDAYDYFPQWDPTDGSSGNWNSQYDN-- 185
Query: 311 ISIFGSSHIWIDHNSLSHCA-----------------DGLVDAVMGSTAITISNNHMTHH 353
I+I G +HIWIDH + + + DG DA G+ IT+S N+ H
Sbjct: 186 ITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDH 245
Query: 354 NEVMLLGHSDSYTRDK-QMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDY-------TH 405
++ + G SDS T D ++++T+ +N + + ++Q PR R G HV NN Y ++
Sbjct: 246 DKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQAAPRVRFGQVHVYNNYYEGSTSSSSY 304
Query: 406 WEMYAIGGSANPTINSQGNRYNAPLNAFAKEVT 438
YA G + I +Q N + P + AK ++
Sbjct: 305 PFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 337
>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 = 60.8 bits (146), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 95/206 (46%), Gaps = 46/206 (22%)
Query: 216 GTLRHAVIQDKPLWIVFKRDMVIQLKQELIVNSFKTIDGRGANVHIANGGCITIQFVTNV 275
GT++ Q W + + + I+ K ++ + +GAN AN G + NV
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTI--------KGANGSAANFGIRVVGNAHNV 97
Query: 276 IIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDAISIFGSS-----HIWIDHN----SL 326
II + + +++ D D+IS+ G+S IW+DHN SL
Sbjct: 98 IIQNMTI--------GLLQGGE---------DADSISLEGNSSGEPSKIWVDHNTVFASL 140
Query: 327 SHCA-------DGLVDAVMGSTAITISNNHMTHHNEVMLLGHSDSYTRDKQMQVTIAYNH 379
+ C+ DG +D G +T+S N++ ++ +V L G+SDS T++ + T +N
Sbjct: 141 TKCSGAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNR 200
Query: 380 FGEGLIQRMPRCRHGYFHVVNNDYTH 405
F E + R+P R G H+ NN + +
Sbjct: 201 F-ENVESRVPLQRRGLSHIYNNYFNN 225
>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 = 2e-09, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 95/206 (46%), Gaps = 46/206 (22%)
Query: 216 GTLRHAVIQDKPLWIVFKRDMVIQLKQELIVNSFKTIDGRGANVHIANGGCITIQFVTNV 275
GT++ Q W + + + I+ K ++ + +GAN AN G + NV
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTI--------KGANGSAANFGIRVVGNAHNV 97
Query: 276 IIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDAISIFGSS-----HIWIDHN----SL 326
II + + +++ D D+IS+ G+S IW+DHN SL
Sbjct: 98 IIQNMTI--------GLLQGGE---------DADSISLEGNSSGEPSKIWVDHNTVFASL 140
Query: 327 SHCA-------DGLVDAVMGSTAITISNNHMTHHNEVMLLGHSDSYTRDKQMQVTIAYNH 379
+ C+ DG +D G +T+S N++ ++ +V L G+SDS T++ + T +N
Sbjct: 141 TKCSGAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNR 200
Query: 380 FGEGLIQRMPRCRHGYFHVVNNDYTH 405
F E + R+P R G H+ NN + +
Sbjct: 201 F-ENVESRVPLQRFGLSHIYNNYFNN 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 = 2e-09, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 95/206 (46%), Gaps = 46/206 (22%)
Query: 216 GTLRHAVIQDKPLWIVFKRDMVIQLKQELIVNSFKTIDGRGANVHIANGGCITIQFVTNV 275
GT++ Q W + + + I+ K ++ + +GAN AN G + NV
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTI--------KGANGSAANFGIRVVGNAHNV 97
Query: 276 IIHGLHVHDCKPTGNAMVRSSPTHYGWRTVADGDAISIFGSS-----HIWIDHN----SL 326
II + + +++ D D+IS+ G+S IW+DHN SL
Sbjct: 98 IIQNMTI--------GLLQGGE---------DADSISLEGNSSGEPSKIWVDHNTVFASL 140
Query: 327 SHCA-------DGLVDAVMGSTAITISNNHMTHHNEVMLLGHSDSYTRDKQMQVTIAYNH 379
+ C+ DG +D G +T+S N++ ++ +V L G+SDS T++ + T +N
Sbjct: 141 TKCSGAGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNR 200
Query: 380 FGEGLIQRMPRCRHGYFHVVNNDYTH 405
F E + R+P R G H+ NN + +
Sbjct: 201 F-ENVESRVPLQRFGLSHIYNNYFNN 225
>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 = 50.1 bits (118), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/108 (35%), Positives = 54/108 (50%), Gaps = 16/108 (14%)
Query: 306 ADGDAISIFG-SSHIWIDHNSL---------SHCADGLVDAVMGSTAITISNNHMTHHNE 355
+G AI + S ++WIDHN S DGLVD + IT+S N +H +
Sbjct: 118 GEGTAIEVTDDSKNVWIDHNEFYSEFPGNGDSDYYDGLVDMKRNAEYITVSWNKFENHWK 177
Query: 356 VMLLGHSD--SYTRDKQMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNN 401
ML+GH+D S DK +T +N+F L R+P R+ H+ NN
Sbjct: 178 TMLVGHTDNASLAPDK---ITYHHNYF-NNLNSRVPLIRYADVHMFNN 221
>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 = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 36/112 (32%), Positives = 54/112 (48%), Gaps = 17/112 (15%)
Query: 307 DGDAISIFGSSHIWIDHNSL---SHCADGL----------VDAVMGSTAITISNNHMTHH 353
DGD I + S ++W+DHN L +H DG VD S +T+S N++
Sbjct: 129 DGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYIHGV 188
Query: 354 NEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDYTH 405
+V L G S S D +T +N++ + + R+P R G H NN YT+
Sbjct: 189 KKVGLDGSSSS---DTGRNITYHHNYYND-VNARLPLQRGGLVHAYNNLYTN 236
>pdb|2EWE|A Chain A, Crystal Structure Of Pectate Lyase C R218k Mutant In
Complex With Pentagalacturonic Acid
Length = 353
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 35/112 (31%), Positives = 54/112 (48%), Gaps = 17/112 (15%)
Query: 307 DGDAISIFGSSHIWIDHNSL---SHCADGL----------VDAVMGSTAITISNNHMTHH 353
DGD I + S ++W+DHN L +H DG VD S +T+S N++
Sbjct: 129 DGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYIHGV 188
Query: 354 NEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCRHGYFHVVNNDYTH 405
+V L G S S D +T +N++ + + ++P R G H NN YT+
Sbjct: 189 KKVGLDGSSSS---DTGRNITYHHNYYND-VNAKLPLQRGGLVHAYNNLYTN 236
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 56/201 (27%), Positives = 86/201 (42%), Gaps = 46/201 (22%)
Query: 244 LIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWR 303
+ VNS K+I G+G I G + NVII + V D P Y W
Sbjct: 104 ITVNSNKSIVGQGTKGVIKGKGLRVVSGAKNVIIQNIAVTDINP-----------KYVW- 151
Query: 304 TVADGDAISIFGSSHIWIDHNSLSHCADGLVDAVMGSTA---ITIS-------------- 346
GDAI++ S +WIDH + + G V+G++A +TIS
Sbjct: 152 ---GGDAITVDDSDLVWIDHVTTARI--GRQHIVLGTSADNRVTISYSLIDGRSDYSATC 206
Query: 347 NNHMTHHNEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCR-HGYFHVVNNDYTH 405
N H H+ V L G +D VT+ N+F L RMP+ + + H VNN + +
Sbjct: 207 NGH--HYWGVYLDGSND--------MVTLKGNYF-YNLSGRMPKVQGNTLLHAVNNLFHN 255
Query: 406 WEMYAIGGSANPTINSQGNRY 426
++ +A + ++GN +
Sbjct: 256 FDGHAFEIGTGGYVLAEGNVF 276
>pdb|1IDK|A Chain A, Pectin Lyase A
Length = 359
Score = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 56/223 (25%), Positives = 91/223 (40%), Gaps = 54/223 (24%)
Query: 244 LIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWR 303
+ V S K++ G G++ I G + N+II + V D P Y W
Sbjct: 104 ITVTSNKSLIGEGSSGAIKGKGLRIVSGAENIIIQNIAVTDINP-----------KYVWG 152
Query: 304 TVADGDAISIFGSSHIWIDHNSLSHCADGLVDAVMGSTA---ITISNNHMT--------- 351
GDAI++ +WIDH + + G V+G++A ++++NN++
Sbjct: 153 ----GDAITLDDCDLVWIDHVTTARI--GRQHYVLGTSADNRVSLTNNYIDGVSDYSATC 206
Query: 352 ---HHNEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCR-HGYFHVVNNDYTHWE 407
H+ + L G +D T M+ Y+ G R P+ + + H VNN +W
Sbjct: 207 DGYHYWAIYLDGDADLVT----MKGNYIYHTSG-----RSPKVQDNTLLHAVNN---YW- 253
Query: 408 MYAIGGSANPTINSQGNRYNAPLNAFAKEVTKRVDTAASQWKG 450
Y I G A +G A N F + VDT ++G
Sbjct: 254 -YDISGHAFEI--GEGGYVLAEGNVF-----QNVDTVLETYEG 288
>pdb|1IDJ|A Chain A, Pectin Lyase A
pdb|1IDJ|B Chain B, Pectin Lyase A
Length = 359
Score = 33.9 bits (76), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 55/223 (24%), Positives = 90/223 (40%), Gaps = 54/223 (24%)
Query: 244 LIVNSFKTIDGRGANVHIANGGCITIQFVTNVIIHGLHVHDCKPTGNAMVRSSPTHYGWR 303
+ V S K++ G G++ I G + N+II + V D P Y W
Sbjct: 104 ITVTSNKSLIGEGSSGAIKGKGLRIVSGAENIIIQNIAVTDINP-----------KYVWG 152
Query: 304 TVADGDAISIFGSSHIWIDHNSLSHCADGLVDAVMGSTA---ITISNNHMT--------- 351
GDAI++ +WIDH + + G V+G++A ++++NN++
Sbjct: 153 ----GDAITLDDCDLVWIDHVTTARI--GRQHYVLGTSADNRVSLTNNYIDGVSDYSATC 206
Query: 352 ---HHNEVMLLGHSDSYTRDKQMQVTIAYNHFGEGLIQRMPRCR-HGYFHVVNNDYTHWE 407
H+ + L G +D T M+ Y+ G R P+ + + H VNN +
Sbjct: 207 DGYHYWGIYLDGDADLVT----MKGNYIYHTSG-----RSPKVQDNTLLHCVNNYF---- 253
Query: 408 MYAIGGSANPTINSQGNRYNAPLNAFAKEVTKRVDTAASQWKG 450
Y I G A +G A N F + VDT ++G
Sbjct: 254 -YDISGHAFEI--GEGGYVLAEGNVF-----QNVDTVLETYEG 288
>pdb|1RK2|A Chain A, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RK2|B Chain B, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RK2|C Chain C, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RK2|D Chain D, E. Coli Ribokinase Complexed With Ribose And Adp, Solved
In Space Group P212121
pdb|1RKA|A Chain A, The Apo Form Of E. Coli Ribokinase
pdb|1RKS|A Chain A, E. Coli Ribokinase In Complex With D-Ribose
pdb|1GQT|A Chain A, Activation Of Ribokinase By Monovalent Cations
pdb|1GQT|B Chain B, Activation Of Ribokinase By Monovalent Cations
pdb|1GQT|C Chain C, Activation Of Ribokinase By Monovalent Cations
pdb|1GQT|D Chain D, Activation Of Ribokinase By Monovalent Cations
pdb|1RKD|A Chain A, E. Coli Ribokinase Complexed With Ribose And Adp
Length = 309
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 29/55 (52%), Gaps = 5/55 (9%)
Query: 103 MKAESSMNSTMAA-----KAEVVAEALSKHAVDNPDEIASMVEMSTRNSTERRKL 152
M+ ES + S MAA + + + A + PDE+ ++V++ T N TE KL
Sbjct: 140 MQLESPLESVMAAAKIAHQNKTIVALNPAPARELPDELLALVDIITPNETEAEKL 194
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
0.319 0.133 0.421
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,828,790
Number of Sequences: 62578
Number of extensions: 594694
Number of successful extensions: 1491
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1441
Number of HSP's gapped (non-prelim): 26
length of query: 510
length of database: 14,973,337
effective HSP length: 103
effective length of query: 407
effective length of database: 8,527,803
effective search space: 3470815821
effective search space used: 3470815821
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)