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= 023995
(274 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 = 228 bits (582), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 121/240 (50%), Positives = 158/240 (65%), Gaps = 15/240 (6%)
Query: 1 MTIRLKEELIMNSFKTIDGRGASVHIA-GGPCITIQYVTNIIIHGLNIHDCKKG--GNAM 57
M I+LK L + KTIDGRGA VH+ GGPC+ ++ V+++I+H L+IH C G+ +
Sbjct: 76 MNIKLKMPLYVAGHKTIDGRGADVHLGNGGPCLFMRKVSHVILHSLHIHGCNTSVLGDVL 135
Query: 58 VRDS----PRHFGWRTVSDGDGVSIFGGTHIWVDHCSLSNCDDGLVDAIHGSTAITISNN 113
V +S P H DGD +++ T+ W+DH SLS+C DGL+D GST ITISNN
Sbjct: 136 VSESIGVEPVH-----AQDGDAITMRNVTNAWIDHNSLSDCSDGLIDVTLGSTGITISNN 190
Query: 114 FMTHHDKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWEM 173
+H KVMLLGH DTY DK+M+VT+AFN FG QR+PR R+G HV NN+Y W +
Sbjct: 191 HFFNHHKVMLLGHDDTYDDDKSMKVTVAFNQFGPNAGQRMPRARYGLVHVANNNYDPWNI 250
Query: 174 YAIGGSANPTINSQGNRFAAPDRAFSKEVTKHE--DAPESEWRNWNWRSEGDLMVNGAFF 231
YAIGGS+NPTI S+GN F AP ++ KEVTK ++P S NW WRS D +NGA+F
Sbjct: 251 YAIGGSSNPTILSEGNSFTAPSESYKKEVTKRIGCESP-SACANWVWRSTRDAFINGAYF 309
>pdb|3ZSC|A Chain A, Catalytic Function And Substrate Recognition Of The
Pectate Lyase From Thermotoga Maritima
Length = 340
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 62/204 (30%), Positives = 96/204 (47%), Gaps = 26/204 (12%)
Query: 1 MTIRLKEELIMNSFKTIDGRGASVHIAGGPCITIQYVTNIIIHGLNIHDCKKGGNAMVRD 60
+ K E+ + S KTI G + + GG + I+ N+II ++ + D
Sbjct: 56 IVFEPKREIKVLSDKTIVGINDAKIVGGG--LVIKDAQNVIIRNIHFEGF------YMED 107
Query: 61 SPRHFGWRTVSDGDGVSIFGGTHIWVDHCSLSNCDDGLVDAIHGSTAITISNNFMTHHDK 120
PR + D D +++ HIW+DH + N +DG VD S IT+S N HDK
Sbjct: 108 DPRGKKY----DFDYINVENSHHIWIDHITFVNGNDGAVDIKKYSNYITVSWNKFVDHDK 163
Query: 121 VMLLGHSDTYTQDKNMQ---VTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH------- 170
V L+G SD ++ Q VT N+F + L+QR+PR R G HV NN Y+
Sbjct: 164 VSLVGSSDKEDPEQAGQAYKVTYHHNYF-KNLIQRMPRIRFGMAHVFNNFYSMGLRTGVS 222
Query: 171 ---WEMYAIGGSANPTINSQGNRF 191
+ +Y + + ++ +GN F
Sbjct: 223 GNVFPIYGVASAMGAKVHVEGNYF 246
>pdb|1BN8|A Chain A, Bacillus Subtilis Pectate Lyase
Length = 420
Score = 76.6 bits (187), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 50/155 (32%), Positives = 77/155 (49%), Gaps = 26/155 (16%)
Query: 74 DGVSIFGGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMT 116
D ++I GGTHIW+DHC+ ++ DG DA +G+ IT+S N+
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 117 HHDKVMLLGHSDTYTQDK-NMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDY------- 168
HDK + G SD+ T D +++T+ N + + +VQR PR R G HV NN Y
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYYEGSTSSS 323
Query: 169 THWEMYAIGGSANPTINSQGNRFAAPDRAFSKEVT 203
++ YA G + I +Q N P + +K ++
Sbjct: 324 SYPFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 358
>pdb|1VBL|A Chain A, Structure Of The Thermostable Pectate Lyase Pl 47
Length = 416
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 50/146 (34%), Positives = 75/146 (51%), Gaps = 25/146 (17%)
Query: 71 SDGDGVSIFGGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNN 113
S+ D +SI G +HIW+DH + ++ D DG +D + S ITIS N
Sbjct: 187 SEYDSISIEGSSHIWIDHNTFTDGDHPDRSLGTYFGRPFQQHDGALDIKNSSDFITISYN 246
Query: 114 FMTHHDKVMLLGHSDTYTQDK-NMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWE 172
T+HDKV L+G SD+ D +++VT+ N++ + + QR+PR R G H+ NN Y
Sbjct: 247 VFTNHDKVTLIGASDSRMADSGHLRVTLHHNYY-KNVTQRLPRVRFGQVHIYNNYYEFSN 305
Query: 173 M------YAIGGSANPTINSQGNRFA 192
+ YA G I +Q N F+
Sbjct: 306 LADYDFQYAWGVGVFSQIYAQNNYFS 331
>pdb|2BSP|A Chain A, Bacillus Subtilis Pectate Lyase R279k Mutant
Length = 420
Score = 75.5 bits (184), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 77/155 (49%), Gaps = 26/155 (16%)
Query: 74 DGVSIFGGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMT 116
D ++I GGTHIW+DHC+ ++ DG DA +G+ IT+S N+
Sbjct: 205 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 264
Query: 117 HHDKVMLLGHSDTYTQDK-NMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDY------- 168
HDK + G SD+ T D +++T+ N + + +VQ+ PR R G HV NN Y
Sbjct: 265 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQKAPRVRFGQVHVYNNYYEGSTSSS 323
Query: 169 THWEMYAIGGSANPTINSQGNRFAAPDRAFSKEVT 203
++ YA G + I +Q N P + +K ++
Sbjct: 324 SYPFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 358
>pdb|3KRG|A Chain A, Structural Insights Into Substrate Specificity And The
Anti Beta-Elimination Mechanism Of Pectate Lyase
Length = 399
Score = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 62/213 (29%), Positives = 95/213 (44%), Gaps = 30/213 (14%)
Query: 16 TIDGRGASVHIAGGPCITIQYVTNIIIHGLNIHDCKKGGNAMVRDSPRHFGWRTVSDGDG 75
TI G G + + GG I+ N+II + D + W S D
Sbjct: 130 TIVGSGTNAKVVGG-NFQIK-SDNVIIRNIEFQDAYDYFPQWDPTAGSSGNW--ASQYDN 185
Query: 76 VSIFGGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMTHH 118
++I GGTHIW+DHC+ ++ DG DA +G+ IT+S N+ H
Sbjct: 186 ITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYHDH 245
Query: 119 DKVMLLGHSDTYTQDK-NMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDY-------TH 170
D + G SD+ T D +++T+ N + + +VQR PR R G HV NN Y ++
Sbjct: 246 DASSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQRAPRVRFGQVHVYNNYYEGSTSSSSY 304
Query: 171 WEMYAIGGSANPTINSQGNRFAAPDRAFSKEVT 203
YA G + I +Q N P + +K ++
Sbjct: 305 PFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 337
>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 = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 71/146 (48%), Gaps = 25/146 (17%)
Query: 80 GGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMTHHDKVM 122
G H+W+DH ++S+ + DG +D GS +TISN+ + HDK M
Sbjct: 151 GAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLIDQHDKTM 210
Query: 123 LLGHSDTY-TQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNN-------DYTHWEMY 174
L+GHSD+ +QDK FN+ + +R PR R+G H NN D + Y
Sbjct: 211 LIGHSDSNGSQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFNNVFKGDAKDPVYRYQY 270
Query: 175 AIGGSANPTINSQGNRFAAPDRAFSK 200
+ G + ++ S+GN F + + SK
Sbjct: 271 SFGIGTSGSVLSEGNSFTIANLSASK 296
>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 = 73.9 bits (180), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 46/146 (31%), Positives = 71/146 (48%), Gaps = 25/146 (17%)
Query: 80 GGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMTHHDKVM 122
G H+W+DH ++S+ + DG +D GS +TISN+ + HDK M
Sbjct: 151 GAHHVWIDHVTISDGNFTDDMYTTKDGETYVQHDGALDIKRGSDYVTISNSLIDQHDKTM 210
Query: 123 LLGHSDTYT-QDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNN-------DYTHWEMY 174
L+GH+DT + QDK FN+ + +R PR R+G H NN D + Y
Sbjct: 211 LIGHNDTNSAQDKGKLHVTLFNNVFNRVTERAPRVRYGSIHSFNNVFKGDAKDPVYRYQY 270
Query: 175 AIGGSANPTINSQGNRFAAPDRAFSK 200
+ G + ++ S+GN F + + SK
Sbjct: 271 SFGIGTSGSVLSEGNSFTIANLSASK 296
>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 = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 49/155 (31%), Positives = 76/155 (49%), Gaps = 26/155 (16%)
Query: 74 DGVSIFGGTHIWVDHCSLSNCD-----------------DGLVDAIHGSTAITISNNFMT 116
D ++I GGTHIW+DHC+ ++ DG DA +G+ IT+S N+
Sbjct: 184 DNITINGGTHIWIDHCTFNDGSRPDSTSPKYYGRKYQHHDGQTDASNGANYITMSYNYYH 243
Query: 117 HHDKVMLLGHSDTYTQDK-NMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDY------- 168
HDK + G SD+ T D +++T+ N + + +VQ PR R G HV NN Y
Sbjct: 244 DHDKSSIFGSSDSKTSDDGKLKITLHHNRY-KNIVQAAPRVRFGQVHVYNNYYEGSTSSS 302
Query: 169 THWEMYAIGGSANPTINSQGNRFAAPDRAFSKEVT 203
++ YA G + I +Q N P + +K ++
Sbjct: 303 SYPFSYAWGIGKSSKIYAQNNVIDVPGLSAAKTIS 337
>pdb|1PCL|A Chain A, Unusual Structural Features In The Parallel Beta-Helix In
Pectate Lyases
Length = 355
Score = 65.5 bits (158), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 57/217 (26%), Positives = 96/217 (44%), Gaps = 40/217 (18%)
Query: 4 RLKEELIMNSFKTIDGRGASVHIAGGPCITIQYVTNIIIHGLNIHDCKKGGNAMVRDSPR 63
+ + ++ + S TI G G++ G + I+ V N+I+ L I D
Sbjct: 71 KARSQISIPSNTTIIGVGSNGKFTNGSLV-IKGVKNVILRNLYIE--------TPVDVAP 121
Query: 64 HF----GWRTVSDGDGVSIFGGTHIWVDHCSLSNCD-----------------DGLVDAI 102
H+ GW ++ D I T++WVDH ++S+ DG +D
Sbjct: 122 HYESGDGWN--AEWDAAVIDNSTNVWVDHVTISDGSFTDDKYTTKDGEKYVQHDGALDIK 179
Query: 103 HGSTAITISNNFMTHHDKVMLLGHSDTYTQDKNMQVTIAF-NHFGEGLVQRIPRCRHGYF 161
GS +TIS + HDK +L+GHSD+ + ++ + F N+ + + +R PR R G
Sbjct: 180 KGSDYVTISYSRFELHDKTILIGHSDSNGSQDSGKLRVTFHNNVFDRVTERAPRVRFGSI 239
Query: 162 HVVNNDY-------THWEMYAIGGSANPTINSQGNRF 191
H NN Y + +Y+ G + +I S+ N F
Sbjct: 240 HAYNNVYLGDVKHSVYPYLYSFGLGTSGSILSESNSF 276
>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 = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 72 DGDGVSIFGGT-----HIWVDH----CSLSNCD-------DGLVDAIHGSTAITISNNFM 115
D D +S+ G + IWVDH SL+ C DG +D G +T+S N++
Sbjct: 112 DADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVSYNYV 171
Query: 116 THHDKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH 170
++ KV L G+SD+ T++ + T N F E + R+P R G H+ NN + +
Sbjct: 172 YNYQKVALNGYSDSDTKNSAARTTYHHNRF-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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 72 DGDGVSIFGGT-----HIWVDH----CSLSNCD-------DGLVDAIHGSTAITISNNFM 115
D D +S+ G + IWVDH SL+ C DG +D G +T+S N++
Sbjct: 112 DADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVSYNYV 171
Query: 116 THHDKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH 170
++ KV L G+SD+ T++ + T N F E + R+P R G H+ NN + +
Sbjct: 172 YNYQKVALNGYSDSDTKNSAARTTYHHNRF-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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 37/115 (32%), Positives = 58/115 (50%), Gaps = 17/115 (14%)
Query: 72 DGDGVSIFGGT-----HIWVDH----CSLSNCD-------DGLVDAIHGSTAITISNNFM 115
D D +S+ G + IWVDH SL+ C DG +D G +T+S N++
Sbjct: 112 DADSISLEGNSSGEPSKIWVDHNTVFASLTKCSGAGDASFDGGIDMKKGVHHVTVSYNYV 171
Query: 116 THHDKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH 170
++ KV L G+SD+ T++ + T N F E + R+P R G H+ NN + +
Sbjct: 172 YNYQKVALNGYSDSDTKNSAARTTYHHNRF-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 = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 57/216 (26%), Positives = 89/216 (41%), Gaps = 40/216 (18%)
Query: 29 GPCITIQYVTNIIIHGLNIHDCKKGGNAMVRDSPRHFGWRTVSDGDGVSIFGGTHIWVDH 88
G I + NIII ++IH ++G + V+D ++W+DH
Sbjct: 94 GIGIRLSNAHNIIIQNVSIHHVREGEGTAIE----------VTDD-------SKNVWIDH 136
Query: 89 CSL---------SNCDDGLVDAIHGSTAITISNNFMTHHDKVMLLGHSDTYTQDKNMQVT 139
S+ DGLVD + IT+S N +H K ML+GH+D + + ++T
Sbjct: 137 NEFYSEFPGNGDSDYYDGLVDMKRNAEYITVSWNKFENHWKTMLVGHTDNASLAPD-KIT 195
Query: 140 IAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWEMYAIGGSANPTINSQGNRF-------A 192
N+F L R+P R+ H+ NN + AI + + N F A
Sbjct: 196 YHHNYF-NNLNSRVPLIRYADVHMFNNYFKDINDTAINSRVGARVFVENNYFDNVGSGQA 254
Query: 193 APDRAFSK-EVTKHEDAPESEWRNWNWRSEGDLMVN 227
P F K V +P + + WN R G++ VN
Sbjct: 255 DPTTGFIKGPVGWFYGSPSTGY--WNLR--GNVFVN 286
>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 = 5e-04, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 50/112 (44%), Gaps = 17/112 (15%)
Query: 72 DGDGVSIFGGTHIWVDHCSL----SNCD---------DGLVDAIHGSTAITISNNFMTHH 118
DGD + + ++WVDH L CD + VD S +T+S N++
Sbjct: 129 DGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYIHGV 188
Query: 119 DKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH 170
KV L G S + D +T N++ + + R+P R G H NN YT+
Sbjct: 189 KKVGLDGSS---SSDTGRNITYHHNYYND-VNARLPLQRGGLVHAYNNLYTN 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 = 0.001, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 50/112 (44%), Gaps = 17/112 (15%)
Query: 72 DGDGVSIFGGTHIWVDHCSL----SNCD---------DGLVDAIHGSTAITISNNFMTHH 118
DGD + + ++WVDH L CD + VD S +T+S N++
Sbjct: 129 DGDMIRVDDSPNVWVDHNELFAANHECDGTPDNDTTFESAVDIKGASNTVTVSYNYIHGV 188
Query: 119 DKVMLLGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTH 170
KV L G S + D +T N++ + + ++P R G H NN YT+
Sbjct: 189 KKVGLDGSS---SSDTGRNITYHHNYYND-VNAKLPLQRGGLVHAYNNLYTN 236
>pdb|1QCX|A Chain A, Pectin Lyase B
Length = 359
Score = 34.3 bits (77), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 44/191 (23%), Positives = 82/191 (42%), Gaps = 26/191 (13%)
Query: 9 LIMNSFKTIDGRGASVHIAGGPCITIQYVTNIIIHGLNIHDCKKGGNAMVRDSPRHFGWR 68
+ +NS K+I G+G I G + N+II + + D +P++
Sbjct: 104 ITVNSNKSIVGQGTKGVIKGKGLRVVSGAKNVIIQNIAVTDI----------NPKY---- 149
Query: 69 TVSDGDGVSIFGGTHIWVDHCSLSNCDDGLVDAIHGSTA---ITISNNFMTHHDKVMLL- 124
V GD +++ +W+DH + + G + G++A +TIS + +
Sbjct: 150 -VWGGDAITVDDSDLVWIDHVTTARI--GRQHIVLGTSADNRVTISYSLIDGRSDYSATC 206
Query: 125 -GHS--DTYTQDKNMQVTIAFNHFGEGLVQRIPRCR-HGYFHVVNNDYTHWEMYAIGGSA 180
GH Y N VT+ N+F L R+P+ + + H VNN + +++ +A
Sbjct: 207 NGHHYWGVYLDGSNDMVTLKGNYF-YNLSGRMPKVQGNTLLHAVNNLFHNFDGHAFEIGT 265
Query: 181 NPTINSQGNRF 191
+ ++GN F
Sbjct: 266 GGYVLAEGNVF 276
>pdb|1ZB7|A Chain A, Crystal Structure Of Botulinum Neurotoxin Type G Light
Chain
Length = 455
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 52/114 (45%), Gaps = 4/114 (3%)
Query: 17 IDGRGASVHIAG-GPCITIQYVTNIIIHGLNIHDCKKGGNAMVRDSPRHFG-WRTVSDGD 74
I G ++ I G GP ++ + ++I++G + G M+R P + V +
Sbjct: 151 IKGLMTNLIIFGPGPVLSDNFTDSMIMNGHSPISEGFGARMMIRFCPSCLNVFNNVQENK 210
Query: 75 GVSIFGGTHIWVDHCSLSNCDDGLVDAIHGSTAITISNNFMTHHDKVMLLGHSD 128
SIF + D +L+ + L+ +HG I ISN +T + K + HSD
Sbjct: 211 DTSIFSRRAYFAD-PALTLMHE-LIHVLHGLYGIKISNLPITPNTKEFFMQHSD 262
>pdb|2HKF|L Chain L, Crystal Structure Of The Complex Fab M75- Peptide
pdb|2HKH|L Chain L, Crystal Structure Of The Fab M75
Length = 219
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 155 RCRHGYFHVVNNDYTHWEMYAIGGSANPTINSQGNRFA-APDR 196
R H N Y HW + G S N I NRF+ PDR
Sbjct: 24 RSSQSLVHSNGNTYLHWYLQKPGQSPNLLIYKVSNRFSGVPDR 66
>pdb|3UO1|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3UYR|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V4U|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V52|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
Length = 218
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 155 RCRHGYFHVVNNDYTHWEMYAIGGSANPTINSQGNRFA-APDR 196
R H N Y HW + G S N I NRF+ PDR
Sbjct: 24 RSSQSLVHSNGNTYLHWYLQKPGQSPNLLIYKVSNRFSGVPDR 66
>pdb|1PLG|L Chain L, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 18/43 (41%), Gaps = 1/43 (2%)
Query: 155 RCRHGYFHVVNNDYTHWEMYAIGGSANPTINSQGNRFA-APDR 196
R H N Y +W + G S P I NRF+ PDR
Sbjct: 24 RSSQSLVHSNGNTYLYWYLQKPGQSPKPLIYRVSNRFSGVPDR 66
>pdb|1QQJ|A Chain A, Crystal Structure Of Mouse Fumarylacetoacetate Hydrolase
Refined At 1.55 Angstrom Resolution
pdb|1QQJ|B Chain B, Crystal Structure Of Mouse Fumarylacetoacetate Hydrolase
Refined At 1.55 Angstrom Resolution
Length = 419
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 124 LGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWEM 173
L HS YT D N+ V++ GEG+ Q CR + H+ +W M
Sbjct: 287 LCHSQPYTFDINLSVSLK----GEGMSQAATICRSNFKHM------YWTM 326
>pdb|1HYO|A Chain A, Crystal Structure Of Fumarylacetoacetate Hydrolase
Complexed With
4-(Hydroxymethylphosphinoyl)-3-Oxo-Butanoic Acid
pdb|1HYO|B Chain B, Crystal Structure Of Fumarylacetoacetate Hydrolase
Complexed With
4-(Hydroxymethylphosphinoyl)-3-Oxo-Butanoic Acid
pdb|2HZY|A Chain A, Mouse Fumarylacetoacetate Hydrolase Complexes With A
Transition-State Mimic Of The Complete Substrate
pdb|2HZY|B Chain B, Mouse Fumarylacetoacetate Hydrolase Complexes With A
Transition-State Mimic Of The Complete Substrate
Length = 421
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 124 LGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWEM 173
L HS YT D N+ V++ GEG+ Q CR + H+ +W M
Sbjct: 289 LCHSQPYTFDINLSVSLK----GEGMSQAATICRSNFKHM------YWTM 328
>pdb|1QCO|A Chain A, Crystal Structure Of Fumarylacetoacetate Hydrolase
Complexed With Fumarate And Acetoacetate
pdb|1QCO|B Chain B, Crystal Structure Of Fumarylacetoacetate Hydrolase
Complexed With Fumarate And Acetoacetate
Length = 423
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 10/50 (20%)
Query: 124 LGHSDTYTQDKNMQVTIAFNHFGEGLVQRIPRCRHGYFHVVNNDYTHWEM 173
L HS YT D N+ V++ GEG+ Q CR + H+ +W M
Sbjct: 289 LCHSQPYTFDINLSVSLK----GEGMSQAATICRSNFKHM------YWTM 328
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
0.321 0.137 0.443
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,836,931
Number of Sequences: 62578
Number of extensions: 367327
Number of successful extensions: 674
Number of sequences better than 100.0: 27
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 635
Number of HSP's gapped (non-prelim): 27
length of query: 274
length of database: 14,973,337
effective HSP length: 97
effective length of query: 177
effective length of database: 8,903,271
effective search space: 1575878967
effective search space used: 1575878967
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)