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= 023585
(280 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 (329), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 83/237 (35%), Positives = 124/237 (52%), Gaps = 18/237 (7%)
Query: 9 FTRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTILAPADSPNTDGIDPD 68
+ RP+ ++F R++++ V NSP W IHPV NV+IR + I + PN DGIDP+
Sbjct: 187 YLRPSFVQFYRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEI--SSTGPNNDGIDPE 244
Query: 69 SSSNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRR--VTGSSPFSGIAVGSE 126
S + IE TGDD V +KSG D G G PS I +R V + G+ +GSE
Sbjct: 245 SCKYMLIEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSE 304
Query: 127 TSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSD-----VYMENARKGIKIAG 181
SGGV NV+A + NV + +KTN RGG++ NI D V E R ++
Sbjct: 305 MSGGVRNVVARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRYDN 364
Query: 182 DVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQSGLIQGLKNSPFTGICLSNINLQG 238
+ 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 = 74.7 bits (182), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 68/210 (32%), Positives = 101/210 (48%), Gaps = 23/210 (10%)
Query: 3 RQRTLPFTRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSN--VVIRYVTILAPADSP 60
+ + L P LI+ S++ + NV NSP N H V+ TI P+ +
Sbjct: 142 KVKKLKQNTPRLIQINKSKNFTLYNVSLINSP--NFHVVFSDGDGFTAWKTTIKTPSTAR 199
Query: 61 NTDGIDPDSSSNVCIEDSYISTGDDLVAVKS---GWDEYGIAYGHPSSGITIRRVTGSSP 117
NTDGIDP SS N+ I S I+TGDD VA+K+ + I+ H G TG
Sbjct: 200 NTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGRAETRNISILHNDFG------TG--- 250
Query: 118 FSGIAVGSETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGI 177
G+++GSET GV NV + + + G+ +K++ G + + S+V M+N K I
Sbjct: 251 -HGMSIGSETM-GVYNVTVDDLKMNGTTNGLRIKSDKSAAGVVNGVRYSNVVMKNVAKPI 308
Query: 178 KIAGDVGDHPDDKFNPNALPVVNGITIKDV 207
I D +K + +P + IT KDV
Sbjct: 309 VI-----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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 43/169 (25%), Positives = 75/169 (44%), Gaps = 2/169 (1%)
Query: 11 RPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTILAPADSPNTDGIDPDSS 70
R +L+ ++ ++ +N F I + NVV + I D+ N DGI+ +S
Sbjct: 330 RSSLMTLRGVENVYLAGFTVRNPAFHGIMNLENHNVVANGL-IHQTYDANNGDGIEFGNS 388
Query: 71 SNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGSETSGG 130
NV + +++ TGDD + +G E P G + I GS T
Sbjct: 389 QNVMVFNNFFDTGDDCINFAAGTGEKA-QEQEPMKGAWLFNNYFRMGHGAIVTGSHTGAW 447
Query: 131 VENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKI 179
+E++LAE+ +Y +G+ K+ GG RN+T + M + K + +
Sbjct: 448 IEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNNAMRDLAKQVMV 496
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 80/181 (44%), Gaps = 15/181 (8%)
Query: 10 TRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTIL-APADS---PNTDGI 65
T+P + + +IS + NSP + ++ +TI + D NTD
Sbjct: 102 TKPKFFAAHSLTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAF 161
Query: 66 DPDSSSNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGS 125
D +S+ V I + + DD VAV SG + Y + G+ S G S +VG
Sbjct: 162 DIGTSTYVTISGATVYNQDDCVAVNSGENIY-FSGGYCSGG---------HGLSIGSVGG 211
Query: 126 ETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMEN-ARKGIKIAGDVG 184
+ V+NV + N G+ +KTNI G + ++T D+ + + A+ GI + + G
Sbjct: 212 RSDNTVKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAKYGIVVQQNYG 271
Query: 185 D 185
D
Sbjct: 272 D 272
>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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 57/204 (27%), Positives = 85/204 (41%), Gaps = 26/204 (12%)
Query: 11 RPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTIL-APADSP---NTDGID 66
+P S I+ + +N+P V +++ VTI A D+ NTD D
Sbjct: 125 KPKFFYAHGLDSSSITGLNIKNTPLMAF-SVQANDITFTDVTINNADGDTQGGHNTDAFD 183
Query: 67 PDSSSNVCIEDSYISTGDDLVAVKSG---WDEYGIAYGHPSSGITIRRVTGSSPFSGIAV 123
+S V I ++ DD +AV SG W G G G++I +V
Sbjct: 184 VGNSVGVNIIKPWVHNQDDCLAVNSGENIWFTGGTCIG--GHGLSIG-----------SV 230
Query: 124 GSETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKIAGDV 183
G ++ V+NV EH + N + +KT G G + IT S++ M GI G V
Sbjct: 231 GDRSNNVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMS----GISDYGVV 286
Query: 184 GDHPDDKFNPNALPVVNGITIKDV 207
+ P P NG+TI+DV
Sbjct: 287 IQQDYEDGKPTGKP-TNGVTIQDV 309
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 41.6 bits (96), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 51/203 (25%), Positives = 78/203 (38%), Gaps = 49/203 (24%)
Query: 61 NTDGIDPDSSSNVCIEDSYISTGDDLVAVKSGWD-EYGIAYGHPSSGITIRRVTGSSPFS 119
NTDG D SS +V ++++++ DD VAV SG + Y G++I V G S
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSGTNIVVSNMYCSGGHGLSIGSVGGKS--- 221
Query: 120 GIAVGSETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKI 179
GV+ + ++ +N N G +K+N G G I N+T ++ + N
Sbjct: 222 -----DNVVDGVQFLSSQVVNSQN---GCRIKSNSGATGTINNVTYQNIALTNIS----- 268
Query: 180 AGDVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQSGLIQGLKNSPFTGICLSNINLQGV 239
+G VQQ L G P G+ +SNI V
Sbjct: 269 ---------------------------TYGVDVQQDYLNGGPTGKPTNGVKISNIKFIKV 301
Query: 240 AGPTSPPLK-----CSDVSGSAY 257
G + + C D S S +
Sbjct: 302 TGTVASSAQDWFILCGDGSCSGF 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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 44/161 (27%), Positives = 71/161 (44%), Gaps = 13/161 (8%)
Query: 57 ADSPNTDGIDPDSSSNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSS 116
A NTD D SS+ V I + + DD +A+ SG + I + T +G
Sbjct: 149 AGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSGTN---ITF-------TGGTCSGGH 198
Query: 117 PFSGIAVGSETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMEN-ARK 175
S +VG + V+ V + + N G+ +KT G G + +T S + + N A+
Sbjct: 199 GLSIGSVGGRSDNTVKTVTISNSKIVNSDNGVRIKTVSGATGSVSGVTYSGITLSNIAKY 258
Query: 176 GIKIAGDVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQSG 216
GI I D + N +P+ G+T+ + G+ V SG
Sbjct: 259 GIVIEQDYENGSPTGTPTNGVPIT-GLTLSKITGS-VASSG 297
>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 = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 63/278 (22%), Positives = 102/278 (36%), Gaps = 55/278 (19%)
Query: 10 TRPNLIEFMNSRSIIISNVIFQNSPFWNIHPVYCSNVVIRYVTIL-APADS---PNTDGI 65
T+P + + + +N+P I V +NV + TI + D NTDG
Sbjct: 98 TKPKFMYIHDVEDSTFKGINIKNTPVQAI-SVQATNVHLNDFTIDNSDGDDNGGHNTDGF 156
Query: 66 DPDSSSNVCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSPFSGIAVGS 125
D S+ V I + + DD +A+ SG S T +G S +VG
Sbjct: 157 DISESTGVYISGATVKNQDDCIAINSG----------ESISFTGGTCSGGHGLSIGSVGG 206
Query: 126 ETSGGVENVLAEHINLYNVGVGIHVKTNIGRGGFIRNITVSDVYMENARKGIKIAGDVGD 185
V+NV + N G+ +KT G + IT S++ +
Sbjct: 207 RDDNTVKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQL--------------- 251
Query: 186 HPDDKFNPNALPVVNGITIKDVWGTKVQQSGLIQGLKNSPFTGICLSNINLQGVAG---- 241
+GIT +G ++Q +P TGI ++++ + GV G
Sbjct: 252 --------------SGITD---YGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLED 294
Query: 242 -PTSPPLKCSDVSGSAYQVKPWPCSELSSSQQTGACSN 278
T + C D S S + W +LS + + C N
Sbjct: 295 DATQVYILCGDGSCSDW---TWSGVDLSGGKTSDKCEN 329
>pdb|4A1N|A Chain A, Human Mitochondrial Endo-Exonuclease
Length = 335
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 51/229 (22%), Positives = 86/229 (37%), Gaps = 51/229 (22%)
Query: 20 SRSIIISNVIFQ----NSPFWNIHPVYCSNVVIRYVTILA---PADSPNTDGIDPDSSSN 72
+ + +SN++ Q NS +WN +YC + R+ + P P T G D
Sbjct: 115 AETFYLSNIVPQDFDNNSGYWNRIEMYCRELTERFEDVWVVSGPLTLPQTRG---DGKKI 171
Query: 73 VCIEDSYISTGDDLVAVKSGWDEYGIAYGHPSSGITIRRVTGSSP---FSGIAVGSETSG 129
V SY G+D VAV S H I RR + S+ V +E G
Sbjct: 172 V----SYQVIGEDNVAVPS----------HLYKVILARRSSVSTEPLALGAFVVPNEAIG 217
Query: 130 GVENVLAEHINLYNVGV--GIHVKTNIGRGGFIRNITVSD-----------VYM-----E 171
+ ++L ++ G+ ++ R IRNI D +Y+ E
Sbjct: 218 FQPQLTEFQVSLQDLEKLSGLVFFPHLDRTSDIRNICSVDTCKLLDFQEFTLYLSTRKIE 277
Query: 172 NARKGIKIA------GDVGDHPDDKFNPNALPVVNGITIKDVWGTKVQQ 214
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
0.316 0.135 0.416
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,953,909
Number of Sequences: 62578
Number of extensions: 395555
Number of successful extensions: 1024
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1003
Number of HSP's gapped (non-prelim): 13
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 51 (24.3 bits)