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= 020257
(328 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3JUR|A Chain A, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|B Chain B, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|C Chain C, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
pdb|3JUR|D Chain D, The Crystal Structure Of A Hyperthermoactive
Exopolygalacturonase From Thermotoga Maritima
Length = 448
Score = 131 bits (330), Expect = 4e-31, Method: Compositional matrix adjust.
Identities = 83/237 (35%), Positives = 124/237 (52%), Gaps = 18/237 (7%)
Query: 57 FTRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTILAPADSPNTDGIDPD 116
+ RP+ ++F R++++ V NSP W IHPV NV+IR + I + PN DGIDP+
Sbjct: 187 YLRPSFVQFYRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEI--SSTGPNNDGIDPE 244
Query: 117 SSSNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRR--VTGSSPFSGIAVGSE 174
S + IE TGDD V +KSG D G G PS I +R V + G+ +GSE
Sbjct: 245 SCKYMLIEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSE 304
Query: 175 TSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSD-----VYMENARKGIKIAG 229
SGGV NV+A + NV + +KTN RGG++ NI D V E R ++
Sbjct: 305 MSGGVRNVVARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRYDN 364
Query: 230 DVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQSGLIQGLKNSPFTGICLSNINLQG 286
+ G++ LPVV + +K++ T + + I+GL+N I +S+ ++G
Sbjct: 365 EEGEY---------LPVVRSVFVKNLKATGGKYAVRIEGLENDYVKDILISDTIIEG 412
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 84.7 bits (208), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 77/235 (32%), Positives = 112/235 (47%), Gaps = 34/235 (14%)
Query: 37 GTIDGQGAI--------WWNMW---RQRTLPFTRPNLIEFMNSRSIIISNVIFQNSPFWN 85
GTIDGQG + WW + + + L P LI+ S++ + NV NSP N
Sbjct: 117 GTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNFTLYNVSLINSP--N 174
Query: 86 IHPVYCSN--VVIRYVTILAPADSPNTDGIDPDSSSNVCIEDSYISTGDDLVAVKS---G 140
H V+ TI P+ + NTDGIDP SS N+ I S I+TGDD VA+K+
Sbjct: 175 FHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGR 234
Query: 141 WDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVLAEHINLYNVGVGIHVKT 200
+ I+ H G TG G+++GSET GV NV + + + G+ +K+
Sbjct: 235 AETRNISILHNDFG------TG----HGMSIGSETM-GVYNVTVDDLKMNGTTNGLRIKS 283
Query: 201 NIGRGGFIRNITVSDVYMENARKGIKIAGDVGDHPDDKFNPNALPVVNGITIKDV 255
+ G + + S+V M+N K I I D +K + +P + IT KDV
Sbjct: 284 DKSAAGVVNGVRYSNVVMKNVAKPIVI-----DTVYEKKEGSNVPDWSDITFKDV 333
>pdb|2UVE|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVE|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase
pdb|2UVF|A Chain A, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
pdb|2UVF|B Chain B, Structure Of Yersinia Enterocolitica Family 28
Exopolygalacturonase In Complex With Digalaturonic Acid
Length = 608
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 56/224 (25%), Positives = 95/224 (42%), Gaps = 16/224 (7%)
Query: 11 ISNAIFRFLSDFLISKFEKISFIG-------ENGTIDGQGAIWWNMWRQRTLPFTRPNLI 63
I++ + R L ++ SK K+ G E DG N + QR R +L+
Sbjct: 282 ITDELGRSLPQYVASKNSKVHEDGILAKNQVEKAVSDGMD--LKNAYGQR-----RSSLM 334
Query: 64 EFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTILAPADSPNTDGIDPDSSSNVCI 123
++ ++ +N F I + NVV + I D+ N DGI+ +S NV +
Sbjct: 335 TLRGVENVYLAGFTVRNPAFHGIMNLENHNVVANGL-IHQTYDANNGDGIEFGNSQNVMV 393
Query: 124 EDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVL 183
+++ TGDD + +G E P G + I GS T +E++L
Sbjct: 394 FNNFFDTGDDCINFAAGTGEKA-QEQEPMKGAWLFNNYFRMGHGAIVTGSHTGAWIEDIL 452
Query: 184 AEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKI 227
AE+ +Y +G+ K+ GG RN+T + M + K + +
Sbjct: 453 AENNVMYLTDIGLRAKSTSTIGGGARNVTFRNNAMRDLAKQVMV 496
>pdb|1CZF|A Chain A, Endo-Polygalacturonase Ii From Aspergillus Niger
pdb|1CZF|B Chain B, Endo-Polygalacturonase Ii From Aspergillus Niger
Length = 362
Score = 49.3 bits (116), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 67/236 (28%), Positives = 100/236 (42%), Gaps = 29/236 (12%)
Query: 28 EKISFIGENG-TIDGQGAIWWNMWRQRTLPFTRPNLIEFMNSRSIIISNVIFQNSPFWNI 86
E I+ G +G I+ GA WW+ + T +P S I+ + +N+P
Sbjct: 95 EHITVTGASGHLINCDGARWWD--GKGTSGKKKPKFFYAHGLDSSSITGLNIKNTPLMAF 152
Query: 87 HPVYCSNVVIRYVTIL-APADSP---NTDGIDPDSSSNVCIEDSYISTGDDLVAVKSG-- 140
V +++ VTI A D+ NTD D +S V I ++ DD +AV SG
Sbjct: 153 -SVQANDITFTDVTINNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSGEN 211
Query: 141 -WDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVLAEHINLYNVGVGIHVK 199
W G G G++I +VG ++ V+NV EH + N + +K
Sbjct: 212 IWFTGGTCIG--GHGLSIG-----------SVGDRSNNVVKNVTIEHSTVSNSENAVRIK 258
Query: 200 TNIGRGGFIRNITVSDVYMENARKGIKIAGDVGDHPDDKFNPNALPVVNGITIKDV 255
T G G + IT S++ M GI G V + P P NG+TI+DV
Sbjct: 259 TISGATGSVSEITYSNIVMS----GISDYGVVIQQDYEDGKPTGKP-TNGVTIQDV 309
>pdb|1IA5|A Chain A, Polygalacturonase From Aspergillus Aculeatus
pdb|1IB4|A Chain A, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
pdb|1IB4|B Chain B, Crystal Structure Of Polygalacturonase From Aspergillus
Aculeatus At Ph4.5
Length = 339
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 55/213 (25%), Positives = 93/213 (43%), Gaps = 19/213 (8%)
Query: 28 EKISFIGENG-TIDGQGAIWWNMWRQRTLPFTRPNLIEFMNSRSIIISNVIFQNSPFWNI 86
++ G +G +I+G G+ WW+ T+P + + +IS + NSP
Sbjct: 72 SDLTITGASGHSINGDGSRWWD-GEGGNGGKTKPKFFAAHSLTNSVISGLKIVNSPVQVF 130
Query: 87 HPVYCSNVVIRYVTIL-APADS---PNTDGIDPDSSSNVCIEDSYISTGDDLVAVKSGWD 142
+ ++ +TI + D NTD D +S+ V I + + DD VAV SG +
Sbjct: 131 SVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSGEN 190
Query: 143 EY-GIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVLAEHINLYNVGVGIHVKTN 201
Y Y G++I V G S + V+NV + N G+ +KTN
Sbjct: 191 IYFSGGYCSGGHGLSIGSVGGRSDNT-----------VKNVTFVDSTIINSDNGVRIKTN 239
Query: 202 IGRGGFIRNITVSDVYMEN-ARKGIKIAGDVGD 233
I G + ++T D+ + + A+ GI + + GD
Sbjct: 240 IDTTGSVSDVTYKDITLTSIAKYGIVVQQNYGD 272
>pdb|1NHC|A Chain A, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|B Chain B, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|C Chain C, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|D Chain D, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|E Chain E, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
pdb|1NHC|F Chain F, Structural Insights Into The Processivity Of
Endopolygalacturonase I From Aspergillus Niger
Length = 336
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 69/303 (22%), Positives = 113/303 (37%), Gaps = 56/303 (18%)
Query: 33 IGENGTIDGQGAIWWNMWRQRTLPFTRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCS 92
+ + IDG G+ WW+ + T+P + + + +N+P I V +
Sbjct: 74 MADGAVIDGDGSRWWDS-KGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAI-SVQAT 131
Query: 93 NVVIRYVTIL-APADS---PNTDGIDPDSSSNVCIEDSYISTGDDLVAVKSGWDEYGIAY 148
NV + TI + D NTDG D S+ V I + + DD +A+ SG
Sbjct: 132 NVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSG-------- 183
Query: 149 GHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFI 208
S T +G S +VG V+NV + N G+ +KT G +
Sbjct: 184 --ESISFTGGTCSGGHGLSIGSVGGRDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDV 241
Query: 209 RNITVSDVYMENARKGIKIAGDVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQSGLIQG 268
IT S++ + +GIT +G ++Q
Sbjct: 242 SEITYSNIQL-----------------------------SGITD---YGIVIEQDYENGS 269
Query: 269 LKNSPFTGICLSNINLQGVAG-----PTSPPLKCSDVSGSAYQVKPWPCSELSSSQQTGA 323
+P TGI ++++ + GV G T + C D S S + W +LS + +
Sbjct: 270 PTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDW---TWSGVDLSGGKTSDK 326
Query: 324 CSN 326
C N
Sbjct: 327 CEN 329
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 70/299 (23%), Positives = 113/299 (37%), Gaps = 64/299 (21%)
Query: 28 EKISFIGENG-TIDGQGAIWWNMWRQRTLPFTRPN--LIEFMNSRSIIISNVIFQNSPFW 84
I+ G +G IDG G +W+ + +P+ ++ + + I+N+ QN P
Sbjct: 69 SNITITGASGHVIDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTGNSKITNLNIQNWPVH 128
Query: 85 NIHPVYCSNVVIRYVTILAPA-DSPN-----------TDGIDPDSSSNVCIEDSYISTGD 132
S + I + + A D PN TDG D SS +V ++++++ D
Sbjct: 129 CFDITGSSQLTISGLILDNRAGDKPNAKSGSLPAAHNTDGFDISSSDHVTLDNNHVYNQD 188
Query: 133 DLVAVKSGWD-EYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVENVLAEHINLYN 191
D VAV SG + Y G++I V G S GV+ + ++ +N N
Sbjct: 189 DCVAVTSGTNIVVSNMYCSGGHGLSIGSVGGKS--------DNVVDGVQFLSSQVVNSQN 240
Query: 192 VGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKIAGDVGDHPDDKFNPNALPVVNGIT 251
G +K+N G G I N+T ++ + N
Sbjct: 241 ---GCRIKSNSGATGTINNVTYQNIALTNIS----------------------------- 268
Query: 252 IKDVWGTKVQQSGLIQGLKNSPFTGICLSNINLQGVAGPTSPPLK-----CSDVSGSAY 305
+G VQQ L G P G+ +SNI V G + + C D S S +
Sbjct: 269 ---TYGVDVQQDYLNGGPTGKPTNGVKISNIKFIKVTGTVASSAQDWFILCGDGSCSGF 324
>pdb|2IQ7|A Chain A, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|B Chain B, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|C Chain C, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|D Chain D, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|E Chain E, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|F Chain F, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
pdb|2IQ7|G Chain G, Crystal Structure Of The Polygalacturonase From
Colletotrichum Lupini And Its Implications For The
Interaction With Polygalacturonase- Inhibiting Proteins
Length = 339
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 68/264 (25%), Positives = 111/264 (42%), Gaps = 28/264 (10%)
Query: 16 FRFLSDFLISKFEK--ISFIGEN--------GTIDGQGAIWWNMWRQRTLPFTRPNLIEF 65
F+ + F ++E ISF G N +ID QG+ WW+ + T+P
Sbjct: 47 FQGKTTFGYKEWEGPLISFSGTNININGASGHSIDCQGSRWWDS-KGSNGGKTKPKFFYA 105
Query: 66 MNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTILAPA-DSP---NTDGIDPDSSSNV 121
+ +S I + N+P + + + V I A DS NTD D SS+ V
Sbjct: 106 HSLKSSNIKGLNVLNTPVQAFSINSATTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGV 165
Query: 122 CIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGGVEN 181
I + + DD +A+ SG + I + T +G S +VG + V+
Sbjct: 166 YISGANVKNQDDCLAINSGTN---ITF-------TGGTCSGGHGLSIGSVGGRSDNTVKT 215
Query: 182 VLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMEN-ARKGIKIAGDVGDHPDDKFN 240
V + + N G+ +KT G G + +T S + + N A+ GI I D +
Sbjct: 216 VTISNSKIVNSDNGVRIKTVSGATGSVSGVTYSGITLSNIAKYGIVIEQDYENGSPTGTP 275
Query: 241 PNALPVVNGITIKDVWGTKVQQSG 264
N +P+ G+T+ + G+ V SG
Sbjct: 276 TNGVPIT-GLTLSKITGS-VASSG 297
>pdb|1K5C|A Chain A, Endopolygalacturonase I From Stereum Purpureum At 0.96 A
Resolution
pdb|1KCC|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With A Galacturonate At 1.00 A Resolution.
pdb|1KCD|A Chain A, Endopolygalacturonase I From Stereum Purpureum Complexed
With Two Galacturonate At 1.15 A Resolution
Length = 335
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 55/127 (43%), Gaps = 29/127 (22%)
Query: 30 ISFIGENGTIDGQGAIWW-----NMWRQRTLPFTR------PNLIEFMNSRSIIISNVIF 78
I+F+G + DG GA++W N + PF + E +NS + IS
Sbjct: 68 INFVGADHIFDGNGALYWDGKGTNNGTHKPHPFLKIKGSGTYKKFEVLNSPAQAIS---- 123
Query: 79 QNSPFWNIHPVYCSNVVIRYVTILAPADSP-----NTDGIDPDSSSNVCIEDSYISTGDD 133
+ P +++ + +T+ A NTDG D S++NV I++ + DD
Sbjct: 124 -------VGPTD-AHLTLDGITVDDFAGDTKNLGHNTDGFDV-SANNVTIQNCIVKNQDD 174
Query: 134 LVAVKSG 140
+A+ G
Sbjct: 175 CIAINDG 181
>pdb|4A1N|A Chain A, Human Mitochondrial Endo-Exonuclease
Length = 335
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 51/229 (22%), Positives = 86/229 (37%), Gaps = 51/229 (22%)
Query: 68 SRSIIISNVIFQ----NSPFWNIHPVYCSNVVIRYV---TILAPADSPNTDGIDPDSSSN 120
+ + +SN++ Q NS +WN +YC + R+ + P P T G D
Sbjct: 115 AETFYLSNIVPQDFDNNSGYWNRIEMYCRELTERFEDVWVVSGPLTLPQTRG---DGKKI 171
Query: 121 VCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSP---FSGIAVGSETSG 177
V SY G+D VAV S H I RR + S+ V +E G
Sbjct: 172 V----SYQVIGEDNVAVPS----------HLYKVILARRSSVSTEPLALGAFVVPNEAIG 217
Query: 178 GVENVLAEHINLYNVGV--GIHVKTNIGRGGFIRNITVSD-----------VYM-----E 219
+ ++L ++ G+ ++ R IRNI D +Y+ E
Sbjct: 218 FQPQLTEFQVSLQDLEKLSGLVFFPHLDRTSDIRNICSVDTCKLLDFQEFTLYLSTRKIE 277
Query: 220 NARKGIKIA------GDVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQ 262
AR +++ + PDD F + + K+ GT++++
Sbjct: 278 GARSVLRLEKIMVNLKNAEIEPDDYFMSRYEKKLEELKAKEQSGTQIRK 326
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 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,526,999
Number of Sequences: 62578
Number of extensions: 467924
Number of successful extensions: 1170
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1147
Number of HSP's gapped (non-prelim): 13
length of query: 328
length of database: 14,973,337
effective HSP length: 99
effective length of query: 229
effective length of database: 8,778,115
effective search space: 2010188335
effective search space used: 2010188335
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)