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= 044170
(372 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 = 290 bits (742), Expect = 9e-79, Method: Compositional matrix adjust.
Identities = 153/346 (44%), Positives = 200/346 (57%), Gaps = 4/346 (1%)
Query: 23 NPIDNCWRCKENWAENRQALAGCALXXXXXXXXXXXXXIYEVTDPSDNDMENPKVGTLRH 82
NPID+CWR NW +NR LA CA+ Y VT DN + NP GTLR+
Sbjct: 2 NPIDSCWRGDSNWDQNRMKLADCAVGFGSSTMGGKGGDFYTVTSTDDNPV-NPTPGTLRY 60
Query: 83 AVIQKEPLWIIFAKDMNIKLQQELIVQGKKTIDGRGANVHIANGAG--FMLQFVQNVXXX 140
+++ LWIIF+++MNIKL+ L V G KTIDGRGA+VH+ NG FM + +
Sbjct: 61 GATREKALWIIFSQNMNIKLKMPLYVAGHKTIDGRGADVHLGNGGPCLFMRKVSHVILHS 120
Query: 141 XXXXXXXSPRSGGMIRDSVDHVGKRGQSDGDAVSIFGSSNIWLDHLTLSQAHDGLIDAIQ 200
+ G ++ V DGDA+++ +N W+DH +LS DGLID
Sbjct: 121 LHIHGCNTSVLGDVLVSESIGVEPVHAQDGDAITMRNVTNAWIDHNSLSDCSDGLIDVTL 180
Query: 201 ASTAITISNCHFSNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHV 260
ST ITISN HF NH K +LLG DT+ +DK M+VTVAFN+F QRMP R+G HV
Sbjct: 181 GSTGITISNNHFFNHHKVMLLGHDDTYDDDKSMKVTVAFNQFGPNAGQRMPRARYGLVHV 240
Query: 261 VNNDYNQWEMYAIGGLKGPTILSQGNRFFASDNQNTKEVTKRMNC-SPEEGKSWIWRSEG 319
NN+Y+ W +YAIGG PTILS+GN F A KEVTKR+ C SP +W+WRS
Sbjct: 241 ANNNYDPWNIYAIGGSSNPTILSEGNSFTAPSESYKKEVTKRIGCESPSACANWVWRSTR 300
Query: 320 DVFLNGAYFNSSGDPKKQIEYQMDDVIKPKPGTEVERITKFAGALV 365
D F+NGAYF SSG ++ Y ++ K + G ++TK AG +
Sbjct: 301 DAFINGAYFVSSGKTEETNIYNSNEAFKVENGNAAPQLTKNAGVVT 346
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 85.1 bits (209), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 62/178 (34%), Positives = 87/178 (48%), Gaps = 22/178 (12%)
Query: 106 LIVQGKKTIDGRGANVHIANGAGFMLQFVQNVXXXXXXXXXXSPRSGGMIRDSVDHVGKR 165
+ V +I G G + I G GF+++ V NV +P D D
Sbjct: 128 VYVGSNTSIIGVGKDAKIK-GGGFLIKNVDNVIIRNIEFE--APLDYFPEWDPTDGTLGE 184
Query: 166 GQSDGDAVSIFGSSNIWLDHLTLS-----------------QAHDGLIDAIQASTAITIS 208
S+ D++SI GSS+IW+DH T + Q HDG +D +S ITIS
Sbjct: 185 WNSEYDSISIEGSSHIWIDHNTFTDGDHPDRSLGTYFGRPFQQHDGALDIKNSSDFITIS 244
Query: 209 NCHFSNHDKAILLGASDTFTEDK-KMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
F+NHDK L+GASD+ D ++VT+ N + K + QR+P VRFG H+ NN Y
Sbjct: 245 YNVFTNHDKVTLIGASDSRMADSGHLRVTLHHNYY-KNVTQRLPRVRFGQVHIYNNYY 301
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 84.7 bits (208), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 51/138 (36%), Positives = 74/138 (53%), Gaps = 15/138 (10%)
Query: 165 RGQS-DGDAVSIFGSSNIWLDHLTLSQAHDGLIDAIQASTAITISNCHFSNHDKAILLGA 223
RG+ D D +++ S +IW+DH+T +DG +D + S IT+S F +HDK L+G+
Sbjct: 110 RGKKYDFDYINVENSHHIWIDHITFVNGNDGAVDIKKYSNYITVSWNKFVDHDKVSLVGS 169
Query: 224 SDTFTEDKKMQ---VTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY----------NQWEM 270
SD ++ Q VT N F K L+QRMP +RFG AHV NN Y N + +
Sbjct: 170 SDKEDPEQAGQAYKVTYHHNYF-KNLIQRMPRIRFGMAHVFNNFYSMGLRTGVSGNVFPI 228
Query: 271 YAIGGLKGPTILSQGNRF 288
Y + G + +GN F
Sbjct: 229 YGVASAMGAKVHVEGNYF 246
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 79.0 bits (193), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 43/113 (38%), Positives = 65/113 (57%), Gaps = 19/113 (16%)
Query: 171 DAVSIFGSSNIWLDHLTLS-----------------QAHDGLIDAIQASTAITISNCHFS 213
D ++I G ++IW+DH T + Q HDG DA + IT+S ++
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 214 NHDKAILLGASDTFT-EDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
+HDK+ + G+SD+ T +D K+++T+ NR+ K +VQR P VRFG HV NN Y
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYY 316
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 65/113 (57%), Gaps = 19/113 (16%)
Query: 171 DAVSIFGSSNIWLDHLTLS-----------------QAHDGLIDAIQASTAITISNCHFS 213
D ++I G ++IW+DH T + Q HDG DA + IT+S ++
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 214 NHDKAILLGASDTFT-EDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
+HDK+ + G+SD+ T +D K+++T+ NR+ K +VQ+ P VRFG HV NN Y
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQKAPRVRFGQVHVYNNYY 316
>pdb|1PCL|A Chain A, Unusual Structural Features In The Parallel Beta-Helix In
Pectate Lyases
Length = 355
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 67/223 (30%), Positives = 98/223 (43%), Gaps = 44/223 (19%)
Query: 101 KLQQELIVQGKKTIDGRGANVHIANGAGFMLQFVQNVXXXXXXXXXXSPRSGGMIRDSVD 160
K + ++ + TI G G+N NG+ +++ V+NV I VD
Sbjct: 71 KARSQISIPSNTTIIGVGSNGKFTNGS-LVIKGVKNVILRNL-----------YIETPVD 118
Query: 161 HVGKRGQSDG-----DAVSIFGSSNIWLDHLTLSQA-----------------HDGLIDA 198
DG DA I S+N+W+DH+T+S HDG +D
Sbjct: 119 VAPHYESGDGWNAEWDAAVIDNSTNVWVDHVTISDGSFTDDKYTTKDGEKYVQHDGALDI 178
Query: 199 IQASTAITISNCHFSNHDKAILLGASDT--FTEDKKMQVTVAFNRFDKGLVQRMPCVRFG 256
+ S +TIS F HDK IL+G SD+ + K++VT N FD+ + +R P VRFG
Sbjct: 179 KKGSDYVTISYSRFELHDKTILIGHSDSNGSQDSGKLRVTFHNNVFDR-VTERAPRVRFG 237
Query: 257 FAHVVNNDY-------NQWEMYAIGGLKGPTILSQGNRFFASD 292
H NN Y +Y+ G +ILS+ N F S+
Sbjct: 238 SIHAYNNVYLGDVKHSVYPYLYSFGLGTSGSILSESNSFTLSN 280
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 77.0 bits (188), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 64/113 (56%), Gaps = 19/113 (16%)
Query: 171 DAVSIFGSSNIWLDHLTLS-----------------QAHDGLIDAIQASTAITISNCHFS 213
D ++I G ++IW+DH T + Q HDG DA + IT+S ++
Sbjct: 184 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 243
Query: 214 NHDKAILLGASDTFT-EDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
+HD + + G+SD+ T +D K+++T+ NR+ K +VQR P VRFG HV NN Y
Sbjct: 244 DHDASSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYY 295
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 64/113 (56%), Gaps = 19/113 (16%)
Query: 171 DAVSIFGSSNIWLDHLTLS-----------------QAHDGLIDAIQASTAITISNCHFS 213
D ++I G ++IW+DH T + Q HDG DA + IT+S ++
Sbjct: 184 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 243
Query: 214 NHDKAILLGASDTFT-EDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
+HDK+ + G+SD+ T +D K+++T+ NR+ K +VQ P VRFG HV NN Y
Sbjct: 244 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQAAPRVRFGQVHVYNNYY 295
>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 = 71.6 bits (174), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 69/226 (30%), Positives = 109/226 (48%), Gaps = 44/226 (19%)
Query: 171 DAVSIF-GSSNIWLDHLTLSQA-----------------HDGLIDAIQASTAITISNCHF 212
DA++I G+ ++W+DH+T+S HDG +D + S +TISN
Sbjct: 144 DAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLI 203
Query: 213 SNHDKAILLGASDT-FTEDK-KMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNN------- 263
HDK +L+G SD+ ++DK K+ VT+ N F++ + +R P VR+G H NN
Sbjct: 204 DQHDKTMLIGHSDSNGSQDKGKLHVTLFNNVFNR-VTERAPRVRYGSIHSFNNVFKGDAK 262
Query: 264 DYNQWEMYAIGGLKGPTILSQGNRFFASDNQNTK--EVTKRMNCSPEEGKSWIWRSEGDV 321
D Y+ G ++LS+GN F ++ +K +V K+ N S I+ G V
Sbjct: 263 DPVYRYQYSFGIGTSGSVLSEGNSFTIANLSASKACKVVKKFNGS-------IFSDNGSV 315
Query: 322 FLNGAYFNSSG----DPKKQIEYQMDDVIKPKPGTEVERITKFAGA 363
LNG+ + SG +I Y D ++P + IT AG+
Sbjct: 316 -LNGSAVDLSGCGFSAYTSKIPYIYD--VQPMTTELAQSITDNAGS 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 = 71.2 bits (173), Expect = 8e-13, Method: Compositional matrix adjust.
Identities = 69/226 (30%), Positives = 109/226 (48%), Gaps = 44/226 (19%)
Query: 171 DAVSIF-GSSNIWLDHLTLSQA-----------------HDGLIDAIQASTAITISNCHF 212
DA++I G+ ++W+DH+T+S HDG +D + S +TISN
Sbjct: 144 DAMNITNGAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLI 203
Query: 213 SNHDKAILLGASDTFT-EDK-KMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNN------- 263
HDK +L+G +DT + +DK K+ VT+ N F++ + +R P VR+G H NN
Sbjct: 204 DQHDKTMLIGHNDTNSAQDKGKLHVTLFNNVFNR-VTERAPRVRYGSIHSFNNVFKGDAK 262
Query: 264 DYNQWEMYAIGGLKGPTILSQGNRFFASDNQNTK--EVTKRMNCSPEEGKSWIWRSEGDV 321
D Y+ G ++LS+GN F ++ +K +V K+ N S I+ G V
Sbjct: 263 DPVYRYQYSFGIGTSGSVLSEGNSFTIANLSASKACKVVKKFNGS-------IFSDNGSV 315
Query: 322 FLNGAYFNSSG----DPKKQIEYQMDDVIKPKPGTEVERITKFAGA 363
LNG+ + SG +I Y D ++P + IT AG+
Sbjct: 316 -LNGSAVDLSGCGFSAYTSKIPYIYD--VQPMTTELAQSITDNAGS 358
>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 = 53/201 (26%), Positives = 86/201 (42%), Gaps = 36/201 (17%)
Query: 78 GTLRHAVIQKEPLWIIFAKDMNIKLQQELIVQGKKTIDGRGANVHIANGAGFMLQFVQNV 137
GT++ Q W + AK + IK + ++ ++G +G AN F ++ V N
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTIKGA---NGSAAN--------FGIRVVGNA 94
Query: 138 XXXXXXXXXXSPRSGGMIRDSVDHVGKRGQSDGDAVSIFGSSNIWLDHLTL--------- 188
GG + D + G S G+ S IW+DH T+
Sbjct: 95 HNVIIQNMTIGLLQGG---EDADSISLEGNSSGEP------SKIWVDHNTVFASLTKCSG 145
Query: 189 --SQAHDGLIDAIQASTAITISNCHFSNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGL 246
+ DG ID + +T+S + N+ K L G SD+ T++ + T NRF+ +
Sbjct: 146 AGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFEN-V 204
Query: 247 VQRMPCVRFGFAHVVNNDYNQ 267
R+P RFG +H+ NN +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 = 2e-09, Method: Compositional matrix adjust.
Identities = 53/201 (26%), Positives = 86/201 (42%), Gaps = 36/201 (17%)
Query: 78 GTLRHAVIQKEPLWIIFAKDMNIKLQQELIVQGKKTIDGRGANVHIANGAGFMLQFVQNV 137
GT++ Q W + AK + IK + ++ ++G +G AN F ++ V N
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTIKGA---NGSAAN--------FGIRVVGNA 94
Query: 138 XXXXXXXXXXSPRSGGMIRDSVDHVGKRGQSDGDAVSIFGSSNIWLDHLTL--------- 188
GG + D + G S G+ S IW+DH T+
Sbjct: 95 HNVIIQNMTIGLLQGG---EDADSISLEGNSSGEP------SKIWVDHNTVFASLTKCSG 145
Query: 189 --SQAHDGLIDAIQASTAITISNCHFSNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGL 246
+ DG ID + +T+S + N+ K L G SD+ T++ + T NRF+ +
Sbjct: 146 AGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFEN-V 204
Query: 247 VQRMPCVRFGFAHVVNNDYNQ 267
R+P RFG +H+ NN +N
Sbjct: 205 ESRVPLQRFGLSHIYNNYFNN 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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 58/220 (26%), Positives = 93/220 (42%), Gaps = 37/220 (16%)
Query: 158 SVDHVGKRGQSDGDAVSIFGSS-NIWLDHLTL---------SQAHDGLIDAIQASTAITI 207
S+ HV + +G A+ + S N+W+DH S +DGL+D + + IT+
Sbjct: 111 SIHHVR---EGEGTAIEVTDDSKNVWIDHNEFYSEFPGNGDSDYYDGLVDMKRNAEYITV 167
Query: 208 SNCHFSNHDKAILLGASD--TFTEDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
S F NH K +L+G +D + DK +T N F+ L R+P +R+ H+ NN +
Sbjct: 168 SWNKFENHWKTMLVGHTDNASLAPDK---ITYHHNYFNN-LNSRVPLIRYADVHMFNNYF 223
Query: 266 NQWEMYAIGGLKGPTILSQGNRFFASDNQNTKEVTKRMNC----------SPEEGKSWIW 315
AI G + + N F DN + + SP G W
Sbjct: 224 KDINDTAINSRVGARVFVENNYF---DNVGSGQADPTTGFIKGPVGWFYGSPSTG---YW 277
Query: 316 RSEGDVFLN--GAYFNSSGDPKKQIEYQMDDVIKPKPGTE 353
G+VF+N ++ NS+ + YQ+ + K E
Sbjct: 278 NLRGNVFVNTPNSHLNSTTNFTPPYSYQVQSATQAKSSVE 317
>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 = 2e-08, Method: Compositional matrix adjust.
Identities = 52/201 (25%), Positives = 85/201 (42%), Gaps = 36/201 (17%)
Query: 78 GTLRHAVIQKEPLWIIFAKDMNIKLQQELIVQGKKTIDGRGANVHIANGAGFMLQFVQNV 137
GT++ Q W + AK + IK + ++ ++G +G AN F ++ V N
Sbjct: 50 GTIKDVCAQ----WKLPAKTVQIKNKSDVTIKGA---NGSAAN--------FGIRVVGNA 94
Query: 138 XXXXXXXXXXSPRSGGMIRDSVDHVGKRGQSDGDAVSIFGSSNIWLDHLTL--------- 188
GG + D + G S G+ S IW+DH T+
Sbjct: 95 HNVIIQNMTIGLLQGG---EDADSISLEGNSSGEP------SKIWVDHNTVFASLTKCSG 145
Query: 189 --SQAHDGLIDAIQASTAITISNCHFSNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGL 246
+ DG ID + +T+S + N+ K L G SD+ T++ + T NRF+ +
Sbjct: 146 AGDASFDGGIDMKKGVHHVTVSYNYVYNYQKVALNGYSDSDTKNSAARTTYHHNRFEN-V 204
Query: 247 VQRMPCVRFGFAHVVNNDYNQ 267
R+P R G +H+ NN +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 = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 49/113 (43%), Gaps = 17/113 (15%)
Query: 166 GQSDGDAVSIFGSSNIWLDHLTLSQAH---DGL----------IDAIQASTAITISNCHF 212
G DGD + + S N+W+DH L A+ DG +D AS +T+S +
Sbjct: 126 GAKDGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYI 185
Query: 213 SNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
K L G+S + D +T N ++ + R+P R G H NN Y
Sbjct: 186 HGVKKVGLDGSS---SSDTGRNITYHHNYYND-VNARLPLQRGGLVHAYNNLY 234
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 49/113 (43%), Gaps = 17/113 (15%)
Query: 166 GQSDGDAVSIFGSSNIWLDHLTLSQAH---DGL----------IDAIQASTAITISNCHF 212
G DGD + + S N+W+DH L A+ DG +D AS +T+S +
Sbjct: 126 GAKDGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYI 185
Query: 213 SNHDKAILLGASDTFTEDKKMQVTVAFNRFDKGLVQRMPCVRFGFAHVVNNDY 265
K L G+S + D +T N ++ + ++P R G H NN Y
Sbjct: 186 HGVKKVGLDGSS---SSDTGRNITYHHNYYND-VNAKLPLQRGGLVHAYNNLY 234
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 47/211 (22%), Positives = 87/211 (41%), Gaps = 38/211 (18%)
Query: 170 GDAVSIFGSSNIWLDHLTLSQ-AHDGLIDAIQASTAITIS------------NCHFSNHD 216
GDA+++ S +W+DH+T ++ ++ A +TIS C+ ++
Sbjct: 153 GDAITVDDSDLVWIDHVTTARIGRQHIVLGTSADNRVTISYSLIDGRSDYSATCNGHHYW 212
Query: 217 KAILLGASDTFTEDKKMQVTVAFNRFDKGLVQRMPCVRFG-FAHVVNNDYNQWEMYAIGG 275
L G++D VT+ N F L RMP V+ H VNN ++ ++ +A
Sbjct: 213 GVYLDGSND--------MVTLKGNYF-YNLSGRMPKVQGNTLLHAVNNLFHNFDGHAFEI 263
Query: 276 LKGPTILSQGNRFFASDNQNTKEVTKRMNCSPEEGKSWIWRSEGDVFLNGAYFNSSGDPK 335
G +L++GN F + ++ ++ SP+ + + VF N+ G+
Sbjct: 264 GTGGYVLAEGNVFQDVNVVVETPISGQLFSSPDANTN---QQCASVFGRSCQLNAFGNSG 320
Query: 336 KQIEYQMDDVIKPKPGTEVERITKFAGALVC 366
G++ I+KFAG +
Sbjct: 321 SM------------SGSDTSIISKFAGKTIA 339
>pdb|1Q3S|A Chain A, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|B Chain B, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|C Chain C, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|D Chain D, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|E Chain E, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|F Chain F, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|G Chain G, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
pdb|1Q3S|H Chain H, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Formiii Crystal Complexed With Adp)
Length = 548
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 17/118 (14%)
Query: 255 FGFAHVVNNDYNQWE-MYAIGGLKGP---TILSQGNRFFASDNQNTKEVTKRMNCSPEEG 310
G+A VV E M + G K P TIL +G T+ V + + E+
Sbjct: 344 LGYAEVVEERKLAGENMIFVEGCKNPKAVTILIRGG---------TEHVIDEVERALEDA 394
Query: 311 KSWIWRSEGDVFLNGAYFNSSGDPKKQIEYQMDDVIKPKPGTEVERITKFAGALVCKP 368
+ DV +GA + G P+ ++ ++D+ K G E I FA AL P
Sbjct: 395 VKVVK----DVMEDGAVLPAGGAPEIELAIRLDEYAKQVGGKEALAIENFADALKIIP 448
>pdb|1Q2V|A Chain A, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form)
pdb|1Q2V|B Chain B, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form)
pdb|1Q2V|C Chain C, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form)
pdb|1Q2V|D Chain D, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form)
pdb|1Q3Q|A Chain A, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Two-Point Mutant Complexed With Amp-Pnp)
pdb|1Q3Q|B Chain B, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Two-Point Mutant Complexed With Amp-Pnp)
pdb|1Q3Q|C Chain C, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Two-Point Mutant Complexed With Amp-Pnp)
pdb|1Q3Q|D Chain D, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Two-Point Mutant Complexed With Amp-Pnp)
Length = 548
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 17/118 (14%)
Query: 255 FGFAHVVNNDYNQWE-MYAIGGLKGP---TILSQGNRFFASDNQNTKEVTKRMNCSPEEG 310
G+A VV E M + G K P TIL +G T+ V + + E+
Sbjct: 344 LGYAEVVEERKLAGENMIFVEGCKNPKAVTILIRGG---------TEHVIDEVERALEDA 394
Query: 311 KSWIWRSEGDVFLNGAYFNSSGDPKKQIEYQMDDVIKPKPGTEVERITKFAGALVCKP 368
+ DV +GA + G P+ ++ ++D+ K G E I FA AL P
Sbjct: 395 VKVVK----DVMEDGAVLPAGGAPEIELAIRLDEYAKQVGGKEALAIENFADALKIIP 448
>pdb|1Q3R|A Chain A, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form Of Single Mutant)
pdb|1Q3R|B Chain B, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form Of Single Mutant)
pdb|1Q3R|C Chain C, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form Of Single Mutant)
pdb|1Q3R|D Chain D, Crystal Structure Of The Chaperonin From Thermococcus
Strain Ks-1 (Nucleotide-Free Form Of Single Mutant)
Length = 548
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 17/118 (14%)
Query: 255 FGFAHVVNNDYNQWE-MYAIGGLKGP---TILSQGNRFFASDNQNTKEVTKRMNCSPEEG 310
G+A VV E M + G K P TIL +G T+ V + + E+
Sbjct: 344 LGYAEVVEERKLAGENMIFVEGCKNPKAVTILIRGG---------TEHVIDEVERALEDA 394
Query: 311 KSWIWRSEGDVFLNGAYFNSSGDPKKQIEYQMDDVIKPKPGTEVERITKFAGALVCKP 368
+ DV +GA + G P+ ++ ++D+ K G E I FA AL P
Sbjct: 395 VKVVK----DVMEDGAVLPAGGAPEIELAIRLDEYAKQVGGKEALAIENFADALKIIP 448
>pdb|2VYC|A Chain A, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|B Chain B, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|C Chain C, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|D Chain D, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|E Chain E, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|F Chain F, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|G Chain G, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|H Chain H, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|I Chain I, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|J Chain J, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
Length = 755
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 2/71 (2%)
Query: 159 VDHVGKRGQSDGDAVSIFGSSNIWLDHLTLSQAHDGLIDAIQASTAITI--SNCHFSNHD 216
+DH G G+S+ A +FG+ W + S ++ ++ A + + NCH S
Sbjct: 201 LDHTGAFGESEKYAARVFGADRSWSVVVGTSGSNRTIMQACMTDNDVVVVDRNCHKSIEQ 260
Query: 217 KAILLGASDTF 227
+L GA +
Sbjct: 261 GLMLTGAKPVY 271
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 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,832,725
Number of Sequences: 62578
Number of extensions: 421624
Number of successful extensions: 890
Number of sequences better than 100.0: 23
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 844
Number of HSP's gapped (non-prelim): 23
length of query: 372
length of database: 14,973,337
effective HSP length: 100
effective length of query: 272
effective length of database: 8,715,537
effective search space: 2370626064
effective search space used: 2370626064
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: 52 (24.6 bits)