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= 043757
(407 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 90.9 bits (224), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 67/191 (35%), Positives = 100/191 (52%), Gaps = 14/191 (7%)
Query: 157 PISIKFNHVNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESPNTDGIHLSLSS 216
P I+ N N + ++ +NS FH++ FTA I P + NTDGI S
Sbjct: 151 PRLIQINKSKNFTLYNVSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSK 210
Query: 217 LVNITNSKIGTGDDCVSI----GHGST-DISVSRITCGPGHGISVGSLGNKPDEMDVNGI 271
+ I S I TGDD V+I G T +IS+ G GHG+S+GS + M V +
Sbjct: 211 NITIAYSNIATGDDNVAIKAYKGRAETRNISILHNDFGTGHGMSIGS-----ETMGVYNV 265
Query: 272 TVFNCTLITTTNGLRIKTKRGSASLKASRIFYENIIMDKVKNPIIIDQNYGAKKNEPSRV 331
TV + + TTNGLRIK+ + +A + + + Y N++M V PI+ID Y +K E S V
Sbjct: 266 TVDDLKMNGTTNGLRIKSDKSAAGV-VNGVRYSNVVMKNVAKPIVIDTVY--EKKEGSNV 322
Query: 332 -KITDVHYKNI 341
+D+ +K++
Sbjct: 323 PDWSDITFKDV 333
>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 = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 69/235 (29%), Positives = 113/235 (48%), Gaps = 15/235 (6%)
Query: 165 VNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESPN----TDGIHLSLSSLVNI 220
+ NSV++G+ +NS + T ++ I D N TD + S+ V I
Sbjct: 112 LTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTI 171
Query: 221 TNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDEMDVNGITVFNCTLIT 280
+ + + DDCV++ G +I S C GHG+S+GS+G + D V +T + T+I
Sbjct: 172 SGATVYNQDDCVAVNSGE-NIYFSGGYCSGGHGLSIGSVGGRSDNT-VKNVTFVDSTIIN 229
Query: 281 TTNGLRIKTKRGSASLKASRIFYENIIMDKV-KNPIIIDQNYGAKKNEPSR-VKITDVHY 338
+ NG+RIKT + S + Y++I + + K I++ QNYG + P+ V ITD
Sbjct: 230 SDNGVRIKTNIDTTG-SVSDVTYKDITLTSIAKYGIVVQQNYGDTSSTPTTGVPITDFVL 288
Query: 339 KNIKGTSITNVGVN--LNCSSVVPCDGVELVGVDLAFDVGSAKKAEANLPFSSSC 391
N+ G S+ + G N ++C S D D++ G N+P +SC
Sbjct: 289 DNVHG-SVVSSGTNILISCGSGSCSD---WTWTDVSVSGGKTSSKCTNVPSGASC 339
>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 = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 75/244 (30%), Positives = 116/244 (47%), Gaps = 16/244 (6%)
Query: 157 PISIKFNHVNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESPN----TDGIHL 212
P + + V +S GIN N+ + V N ++ I D N TDG +
Sbjct: 100 PKFMYIHDVEDSTFKGINIKNTP-VQAISVQATNVHLNDFTIDNSDGDDNGGHNTDGFDI 158
Query: 213 SLSSLVNITNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDEMDVNGIT 272
S S+ V I+ + + DDC++I G + IS + TC GHG+S+GS+G + D V +T
Sbjct: 159 SESTGVYISGATVKNQDDCIAINSGES-ISFTGGTCSGGHGLSIGSVGGRDDNT-VKNVT 216
Query: 273 VFNCTLITTTNGLRIKTKRGSASLKASRIFYENIIMDKVKN-PIIIDQNY--GAKKNEPS 329
+ + T+ + NG+RIKT + S I Y NI + + + I+I+Q+Y G+ PS
Sbjct: 217 ISDSTVSNSANGVRIKTIY-KETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPS 275
Query: 330 R-VKITDVHYKNIKGTSITN-VGVNLNCSSVVPCDGVELVGVDLAFDVGSAKKAEANLPF 387
+ ITDV + GT + V + C C GVDL+ G N+P
Sbjct: 276 TGIPITDVTVDGVTGTLEDDATQVYILCGD-GSCSDWTWSGVDLSG--GKTSDKCENVPS 332
Query: 388 SSSC 391
+SC
Sbjct: 333 GASC 336
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 48/143 (33%), Positives = 83/143 (58%), Gaps = 7/143 (4%)
Query: 206 NTDGIHLSLSSLVNITNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDE 265
NTDG +S S V + N+ + DDCV++ G T+I VS + C GHG+S+GS+G K D
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSG-TNIVVSNMYCSGGHGLSIGSVGGKSDN 223
Query: 266 MDVNGITVFNCTLITTTNGLRIKTKRGSASLKASRIFYENIIMDKVKN-PIIIDQNY--G 322
+ V+G+ + ++ + NG RIK+ G A+ + + Y+NI + + + + Q+Y G
Sbjct: 224 V-VDGVQFLSSQVVNSQNGCRIKSNSG-ATGTINNVTYQNIALTNISTYGVDVQQDYLNG 281
Query: 323 AKKNEPSR-VKITDVHYKNIKGT 344
+P+ VKI+++ + + GT
Sbjct: 282 GPTGKPTNGVKISNIKFIKVTGT 304
>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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/197 (31%), Positives = 104/197 (52%), Gaps = 20/197 (10%)
Query: 173 INSLNSKGFHILLVFCQNFT---ASNLNI-------TAPDESP--NTDGIHLSLSSLVNI 220
+ S N KG ++L Q F+ A+ L + +A D + NTD + S+ V I
Sbjct: 108 LKSSNIKGLNVLNTPVQAFSINSATTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGVYI 167
Query: 221 TNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDEMDVNGITVFNCTLIT 280
+ + + DDC++I G T+I+ + TC GHG+S+GS+G + D V +T+ N ++
Sbjct: 168 SGANVKNQDDCLAINSG-TNITFTGGTCSGGHGLSIGSVGGRSDNT-VKTVTISNSKIVN 225
Query: 281 TTNGLRIKTKRGSASLKASRIFYENIIMDKV-KNPIIIDQNY--GAKKNEPSR-VKITDV 336
+ NG+RIKT G A+ S + Y I + + K I+I+Q+Y G+ P+ V IT +
Sbjct: 226 SDNGVRIKTVSG-ATGSVSGVTYSGITLSNIAKYGIVIEQDYENGSPTGTPTNGVPITGL 284
Query: 337 HYKNIKGTSITNVGVNL 353
I G S+ + G N+
Sbjct: 285 TLSKITG-SVASSGTNV 300
>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 = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 56/188 (29%), Positives = 99/188 (52%), Gaps = 12/188 (6%)
Query: 165 VNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESP----NTDGIHLSLSSLVNI 220
+++S +TG+N N+ V + T +++ I D NTD + S VNI
Sbjct: 134 LDSSSITGLNIKNTP-LMAFSVQANDITFTDVTINNADGDTQGGHNTDAFDVGNSVGVNI 192
Query: 221 TNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDEMDVNGITVFNCTLIT 280
+ DDC+++ G +I + TC GHG+S+GS+G++ + + V +T+ + T+
Sbjct: 193 IKPWVHNQDDCLAVNSGE-NIWFTGGTCIGGHGLSIGSVGDRSNNV-VKNVTIEHSTVSN 250
Query: 281 TTNGLRIKTKRGSASLKASRIFYENIIMDKVKN-PIIIDQNY--GAKKNEPSR-VKITDV 336
+ N +RIKT G A+ S I Y NI+M + + ++I Q+Y G +P+ V I DV
Sbjct: 251 SENAVRIKTISG-ATGSVSEITYSNIVMSGISDYGVVIQQDYEDGKPTGKPTNGVTIQDV 309
Query: 337 HYKNIKGT 344
+++ G+
Sbjct: 310 KLESVTGS 317
>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 = 57.4 bits (137), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 80/373 (21%), Positives = 131/373 (35%), Gaps = 81/373 (21%)
Query: 36 DVTKFGAEANGDKNNAQAFTETWAKACGSGAPAKVLIPSGTFLTGPVVFSGPCKSAITVE 95
++ FGA +G + +++F + G ++++P G FLTGP+ KS I +
Sbjct: 29 NLLDFGARGDGRTDCSESFKRAIEELSKQGG-GRLIVPEGVFLTGPI----HLKSNIELH 83
Query: 96 VRGIVKATTDLKEYADGDWILFENIXXXXXXXXXXXXXXXAAS----------------- 138
V+G +K D + Y FE I +
Sbjct: 84 VKGTIKFIPDPERYLPVVLTRFEGIELYNYSPLVYALDCENVAITGSGVLDGSADNEHWW 143
Query: 139 ---------WKLKDSNPQHSATKCD-------------------LLPISIKFNHVNNSVV 170
WK N Q K L P ++F N +V
Sbjct: 144 PWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRPSFVQFYRCRNVLV 203
Query: 171 TGINSLNSKGFHILLVFCQNFTASNLNITAPDESPNTDGIHLSLSSLVNITNSKIGTGDD 230
G+ +NS + I V +N N+ I++ PN DGI + I + TGDD
Sbjct: 204 EGVKIINSPMWCIHPVLSENVIIRNIEISST--GPNNDGIDPESCKYMLIEKCRFDTGDD 261
Query: 231 CVSIGHG-----------------STDISVSRITCGPGHGISVGSLGNKPDEMD--VNGI 271
V I G ++ +S+ + G G+ +GS EM V +
Sbjct: 262 SVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHG---GLVIGS------EMSGGVRNV 312
Query: 272 TVFNCTLITTTNGLRIKTKRGSASLKASRIFYENIIMDKVKNPIIIDQNYGAKKNEPSRV 331
N + LR+KT + F +N+ ++ + I I+ Y ++ E V
Sbjct: 313 VARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRYDNEEGEYLPV 372
Query: 332 KITDVHYKNIKGT 344
+ V KN+K T
Sbjct: 373 -VRSVFVKNLKAT 384
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 53.9 bits (128), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 80/349 (22%), Positives = 139/349 (39%), Gaps = 29/349 (8%)
Query: 36 DVTKFGAEANGDKNNAQAFTETWAKACGSGAPAKVLIPSGTF-LTGPVVFSGPCKSAITV 94
++ +GA A+ + A T WA AC SG V IPSG + L V +G SA +
Sbjct: 22 NILSYGAVADNSTDVGPAITSAWA-ACKSGG--LVYIPSGNYALNTWVTLTG--GSATAI 76
Query: 95 EVRGIVKATTDLKEYADGDWILFENIXXXXXXXXXXXXXXXAASWKLKDSNPQHSATKCD 154
++ GI+ T A G+ I + + +
Sbjct: 77 QLDGIIYRTGT----ASGNMIAVTDTTDFELFSSTSKGAVQGFGYVYHAEGTYGARI--- 129
Query: 155 LLPISIKFNHVNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESPNTDGIHLSL 214
++ V + V I +++ FH + C + N+ I +E DGI +
Sbjct: 130 -----LRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRGGNEG-GLDGIDV-W 182
Query: 215 SSLVNITNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDEMDVNGITVF 274
S + + + ++ D+CV++ + +I V I C G ++GSLG D D I
Sbjct: 183 GSNIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGADTDVTD---IVYR 239
Query: 275 NCTLITTTNGLRIKTKRGSASLKASRIFYENIIMDKVKNPIIIDQNYGAKKNEPSR-VKI 333
N ++ IK+ GS ++ S + EN I + ID + + V++
Sbjct: 240 NVYTWSSNQMYMIKSNGGSGTV--SNVLLENFIGHGNAYSLDIDGYWSSMTAVAGDGVQL 297
Query: 334 TDVHYKNIKGTS---ITNVGVNLNCSSVVPCDGVELVGVDLAFDVGSAK 379
++ KN KGT T + + CS PC + L + + + GS++
Sbjct: 298 NNITVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAIWTESGSSE 346
>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 = 50.4 bits (119), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 61/117 (52%), Gaps = 6/117 (5%)
Query: 206 NTDGIHLSLSSLVNITNSKIGTGDDCVSIGHGSTDISVSRITCGPGHGISVGSLGNKPDE 265
NTDG +S ++ V I N + DDC++I G+ +I C GHGIS+GS+
Sbjct: 151 NTDGFDVSANN-VTIQNCIVKNQDDCIAINDGN-NIRFENNQCSGGHGISIGSIATGKH- 207
Query: 266 MDVNGITVFNCTLITTTNGLRIKTKRGSASLKASRIFYE-NIIMDKVKNPIIIDQNY 321
V+ + + T+ + G+RIK +R + S S + Y+ N I K ++I Q+Y
Sbjct: 208 --VSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGVLISQSY 262
>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 = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 35/74 (47%), Gaps = 1/74 (1%)
Query: 165 VNNSVVTGINSLNSKGFHILLVFCQNFTASNLNITAPDESPNTDGIHLSLSSLVNITNSK 224
V N + G ++ + FH ++ + +N I ++ N DGI S V + N+
Sbjct: 339 VENVYLAGF-TVRNPAFHGIMNLENHNVVANGLIHQTYDANNGDGIEFGNSQNVMVFNNF 397
Query: 225 IGTGDDCVSIGHGS 238
TGDDC++ G+
Sbjct: 398 FDTGDDCINFAAGT 411
>pdb|2Q69|A Chain A, Crystal Structure Of Nak Channel D66n Mutant
pdb|2Q69|B Chain B, Crystal Structure Of Nak Channel D66n Mutant
Length = 114
Score = 28.9 bits (63), Expect = 5.9, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 4 QERFVVKAVLLLGLTFLSSVVQGAEPNYSLYFDVTKFGAEANGD 47
Q FV+ + L+ T S V+G P +LYF V NG+
Sbjct: 25 QVLFVLTILTLISGTIFYSTVEGLRPIDALYFSVVTLTTVGNGN 68
>pdb|3T2M|A Chain A, Crystal Structure Of Nak Channel N68d Mutant
pdb|3T2M|B Chain B, Crystal Structure Of Nak Channel N68d Mutant
Length = 97
Score = 28.5 bits (62), Expect = 7.0, Method: Composition-based stats.
Identities = 15/44 (34%), Positives = 21/44 (47%)
Query: 4 QERFVVKAVLLLGLTFLSSVVQGAEPNYSLYFDVTKFGAEANGD 47
Q FV+ + L+ T S V+G P +LYF V +GD
Sbjct: 8 QVLFVLTILTLISGTIFYSTVEGLRPIDALYFSVVTLTTVGDGD 51
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 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,740,417
Number of Sequences: 62578
Number of extensions: 472758
Number of successful extensions: 1187
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1156
Number of HSP's gapped (non-prelim): 21
length of query: 407
length of database: 14,973,337
effective HSP length: 101
effective length of query: 306
effective length of database: 8,652,959
effective search space: 2647805454
effective search space used: 2647805454
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: 53 (25.0 bits)