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= 027251
(226 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 = 87.0 bits (214), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 68/201 (33%), Positives = 102/201 (50%), Gaps = 20/201 (9%)
Query: 2 FHIVINGCNDVKVQGVKVSAAGESPNTDGIHVQSSSGVTILDSKIGTGDDCVSV----GP 57
FH+V + + + + NTDGI SS +TI S I TGDD V++ G
Sbjct: 175 FHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGR 234
Query: 58 GAT-NLWIENVACGPGHGISIGSLGKEQQEAGVQNVTVTSVTFTGTQNGVRIKSWGRTSG 116
T N+ I + G GHG+SIGS + GV NVTV + GT NG+RIKS +++
Sbjct: 235 AETRNISILHNDFGTGHGMSIGS-----ETMGVYNVTVDDLKMNGTTNGLRIKS-DKSAA 288
Query: 117 GFARNILFQHALMNNVDNPIIIDQNYCPDNG-NCPGQASGVKISDVIYQDIHGTSATEVG 175
G + + + +M NV PI+ID Y G N P SD+ ++D+ TS T+
Sbjct: 289 GVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSNVPDW------SDITFKDV--TSETKGV 340
Query: 176 VKLDCSSKNPCTGISLEDVKL 196
V L+ + +++++VKL
Sbjct: 341 VVLNGENAKKPIEVTMKNVKL 361
>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 = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 65/193 (33%), Positives = 102/193 (52%), Gaps = 20/193 (10%)
Query: 27 NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISIGSLGKEQQE 86
NTD V +S GV I+ + DDC++V G N+W C GHG+SIGS+G
Sbjct: 178 NTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSGE-NIWFTGGTCIGGHGLSIGSVGDRSNN 236
Query: 87 AGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNV-DNPIIIDQNYCPD 145
V+NVT+ T + ++N VRIK+ +G + I + + +M+ + D ++I Q+Y +
Sbjct: 237 V-VKNVTIEHSTVSNSENAVRIKTISGATGSVSE-ITYSNIVMSGISDYGVVIQQDY--E 292
Query: 146 NGNCPGQAS-GVKISDVIYQDIHG---TSATEVGVKLDCSSKNPCTGISLEDVKLI---- 197
+G G+ + GV I DV + + G + ATE + L C S C+ + +DVK+
Sbjct: 293 DGKPTGKPTNGVTIQDVKLESVTGSVDSGATE--IYLLCGS-GSCSDWTWDDVKVTGGKK 349
Query: 198 ---YKNQPAEASC 207
KN P+ ASC
Sbjct: 350 STACKNFPSVASC 362
>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 = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/190 (31%), Positives = 91/190 (47%), Gaps = 9/190 (4%)
Query: 27 NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISIGSLGKEQQE 86
NTD + +S+ VTI + + DDCV+V G N++ C GHG+SIGS+G
Sbjct: 157 NTDAFDIGTSTYVTISGATVYNQDDCVAVNSGE-NIYFSGGYCSGGHGLSIGSVGGRSDN 215
Query: 87 AGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNVDNPIIIDQNYCPDN 146
V+NVT T + NGVRIK+ T+G + L + I++ QNY D
Sbjct: 216 T-VKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAKYGIVVQQNY-GDT 273
Query: 147 GNCPGQASGVKISDVIYQDIHGTSATE-VGVKLDCSSKNPCTGISLEDVKLIYKNQPAEA 205
+ P +GV I+D + ++HG+ + + + C S C+ + DV + +
Sbjct: 274 SSTP--TTGVPITDFVLDNVHGSVVSSGTNILISCGS-GSCSDWTWTDVSV--SGGKTSS 328
Query: 206 SCTNADGSAS 215
CTN AS
Sbjct: 329 KCTNVPSGAS 338
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 69.7 bits (169), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 55/168 (32%), Positives = 86/168 (51%), Gaps = 7/168 (4%)
Query: 27 NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISIGSLGKEQQE 86
NTDG + SS VT+ ++ + DDCV+V G TN+ + N+ C GHG+SIGS+G +
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSG-TNIVVSNMYCSGGHGLSIGSVGGKSDN 223
Query: 87 AGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNVDNP-IIIDQNYCPD 145
V V S +QNG RIKS +G N+ +Q+ + N+ + + Q+Y
Sbjct: 224 V-VDGVQFLSSQVVNSQNGCRIKSNSGATGTI-NNVTYQNIALTNISTYGVDVQQDYL-- 279
Query: 146 NGNCPGQAS-GVKISDVIYQDIHGTSATEVGVKLDCSSKNPCTGISLE 192
NG G+ + GVKIS++ + + GT A+ C+G +
Sbjct: 280 NGGPTGKPTNGVKISNIKFIKVTGTVASSAQDWFILCGDGSCSGFTFS 327
>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 = 68.6 bits (166), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 63/189 (33%), Positives = 96/189 (50%), Gaps = 12/189 (6%)
Query: 27 NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISIGSLGKEQQE 86
NTDG + S+GV I + + DDC+++ G + + C GHG+SIGS+G
Sbjct: 152 NTDGFDISESTGVYISGATVKNQDDCIAINSGES-ISFTGGTCSGGHGLSIGSVGGRDDN 210
Query: 87 AGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNVDNPIIIDQNYCPDN 146
V+NVT++ T + + NGVRIK+ + +G + L D I+I+Q+Y +N
Sbjct: 211 T-VKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITDYGIVIEQDY--EN 267
Query: 147 GNCPGQAS-GVKISDVIYQDIHGT---SATEVGVKLDCSSKNPCT--GISLEDVKLIYK- 199
G+ G S G+ I+DV + GT AT+V + S + T G+ L K K
Sbjct: 268 GSPTGTPSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLSGGKTSDKC 327
Query: 200 -NQPAEASC 207
N P+ ASC
Sbjct: 328 ENVPSGASC 336
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 57/216 (26%), Positives = 106/216 (49%), Gaps = 14/216 (6%)
Query: 2 FHIVINGCNDVKVQGVKVSAAGESPNTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATN 61
FH ++ C+D +V + + E DGI V S+ + + D ++ D+CV+V A N
Sbjct: 151 FHFTMDTCSDGEVYNMAIRGGNEG-GLDGIDVWGSN-IWVHDVEVTNKDECVTVKSPANN 208
Query: 62 LWIENVACGPGHGISIGSLGKEQQEAGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARN 121
+ +E++ C G ++GSLG + V ++ +V + IKS G + G N
Sbjct: 209 ILVESIYCNWSGGCAMGSLGADTD---VTDIVYRNVYTWSSNQMYMIKSNGGS--GTVSN 263
Query: 122 ILFQHALMNNVDNPIIIDQNYCPDNGNCPGQASGVKISDVIYQDIHGTS---ATEVGVKL 178
+L ++ + + + ID Y G GV+++++ ++ GT AT +++
Sbjct: 264 VLLENFIGHGNAYSLDID-GYWSSMTAVAGD--GVQLNNITVKNWKGTEANGATRPPIRV 320
Query: 179 DCSSKNPCTGISLEDVKLIYKNQPAEAS-CTNADGS 213
CS PCT ++LED+ + ++ +E C +A GS
Sbjct: 321 VCSDTAPCTDLTLEDIAIWTESGSSELYLCRSAYGS 356
>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 = 62.4 bits (150), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 55/167 (32%), Positives = 86/167 (51%), Gaps = 9/167 (5%)
Query: 21 AAGESP---NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISI 77
+AG+S NTD V SS+GV I + + DDC+++ G TN+ C GHG+SI
Sbjct: 144 SAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSG-TNITFTGGTCSGGHGLSI 202
Query: 78 GSLGKEQQEAGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNVDNPII 137
GS+G V+ VT+++ + NGVRIK+ +G + L N I+
Sbjct: 203 GSVGGRSDNT-VKTVTISNSKIVNSDNGVRIKTVSGATGSVSGVTYSGITLSNIAKYGIV 261
Query: 138 IDQNYCPDNGNCPGQAS-GVKISDVIYQDIHGTSATE-VGVKLDCSS 182
I+Q+Y +NG+ G + GV I+ + I G+ A+ V + C+S
Sbjct: 262 IEQDY--ENGSPTGTPTNGVPITGLTLSKITGSVASSGTNVYILCAS 306
>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 = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 47/138 (34%), Positives = 71/138 (51%), Gaps = 9/138 (6%)
Query: 27 NTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGISIGSLGKEQQE 86
NTDG V S++ VTI + + DDC+++ G N+ EN C GHGISIGS+ +
Sbjct: 151 NTDGFDV-SANNVTIQNCIVKNQDDCIAINDG-NNIRFENNQCSGGHGISIGSIATGKH- 207
Query: 87 AGVQNVTVTSVTFTGTQNGVRIKSWGRTSGGFARNILFQHALMNNVDNP-IIIDQNYCPD 145
V NV + T T + GVRIK+ + + + ++ + ++I Q+Y D
Sbjct: 208 --VSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGVLISQSYPDD 265
Query: 146 NGNCPGQASGVKISDVIY 163
GN PG +G SDV +
Sbjct: 266 VGN-PG--TGAPFSDVNF 280
>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 = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 68/155 (43%), Gaps = 28/155 (18%)
Query: 11 DVKVQGVKVSAAGESPNTDGIHVQSSSGVTILDSKIGTGDDCVSVGPG------------ 58
+V ++ +++S+ G PN DGI +S + I + TGDD V + G
Sbjct: 223 NVIIRNIEISSTG--PNNDGIDPESCKYMLIEKCRFDTGDDSVVIKSGRDADGRRIGVPS 280
Query: 59 -----ATNLWIENVACGPGHGISIGSLGKEQQEAGVQNVTVTSVTFTGTQNGVRIKSWGR 113
NL I + G G+ IGS + GV+NV + + + +R+K+ R
Sbjct: 281 EYILVRDNLVISQASHG---GLVIGS----EMSGGVRNVVARNNVYMNVERALRLKTNSR 333
Query: 114 TSGGFARNILFQHALMNNVDNPII-IDQNYCPDNG 147
GG+ NI F + NV +I I+ Y + G
Sbjct: 334 -RGGYMENIFFIDNVAVNVSEEVIRINLRYDNEEG 367
>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 = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 51/214 (23%), Positives = 91/214 (42%), Gaps = 25/214 (11%)
Query: 2 FHIVINGCNDVKVQGVKVSAAGESPNTDGIHVQSSSGVTILDSKIGTGDDCVSVGPGA-- 59
FH ++N N V + ++ N DGI +S V + ++ TGDDC++ G
Sbjct: 354 FHGIMNLENHNVVANGLIHQTYDANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGE 413
Query: 60 --------TNLWIENVACGPGHG-ISIGSLGKEQQEAGVQNVTVTSVTFTGTQNGVRIKS 110
W+ N GHG I GS A ++++ + T G+R KS
Sbjct: 414 KAQEQEPMKGAWLFNNYFRMGHGAIVTGS----HTGAWIEDILAENNVMYLTDIGLRAKS 469
Query: 111 WGRTSGGFARNILFQHALMNNVDNPI-IIDQNYCPDNGN-------CPGQASGVKISDVI 162
T GG ARN+ F++ M ++ + ++ +Y N N P Q + +V
Sbjct: 470 -TSTIGGGARNVTFRNNAMRDLAKQVMVMTLDYADSNANIDYPPAKIPAQFYDFTLKNVT 528
Query: 163 YQDIHGTSATEVGVKLDCSSKNPCTGISLEDVKL 196
+ G + + + +K D ++K + + +V+L
Sbjct: 529 VDNSTGKNPS-IEIKGDTANKAWHRLVHVNNVQL 561
>pdb|3VI3|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 218
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 22/45 (48%), Gaps = 1/45 (2%)
Query: 31 IHVQSSSGVTILDSKIGTGDDCVSVGPGATNLWIENVACGPGHGI 75
+H+Q S G ++ C + G T+ WIE V PGHG+
Sbjct: 2 VHLQQS-GAELMKPGASVKISCKATGYTFTSYWIEWVKQRPGHGL 45
>pdb|3ZXA|C Chain C, Structure And Assembly Of Turnip Crinkle Virus I. X-Ray
Crystallographic Structure Analysis At 3.2 A Resolution
pdb|3ZX8|A Chain A, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX8|B Chain B, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX8|C Chain C, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|A Chain A, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|B Chain B, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
pdb|3ZX9|C Chain C, Cryo-Em Reconstruction Of Native And Expanded Turnip
Crinkle Virus
Length = 347
Score = 27.3 bits (59), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 24/108 (22%), Positives = 46/108 (42%), Gaps = 20/108 (18%)
Query: 73 HGISIGSLGKEQQEAGVQNVTVTSVT------FTGTQNGVRIKSWGRT------------ 114
+G LG+ + E VQ T T F G ++G R+ SW +T
Sbjct: 217 YGQGAAQLGEVRVEYTVQLKNRTGSTSAQIGDFAGVKDGPRLVSWSKTKGTAGWEHDCHF 276
Query: 115 --SGGFARNILFQHALMNNVDNPIIIDQNYCPDNGNCPGQASGVKISD 160
+G F+ + ++ A ++ ++N D + + Q +GVK+++
Sbjct: 277 LGTGNFSLTLFYEKAPVSGLENADASDFSVLGEAAAGSVQWAGVKVAE 324
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
0.314 0.132 0.399
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,237,020
Number of Sequences: 62578
Number of extensions: 308048
Number of successful extensions: 519
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 482
Number of HSP's gapped (non-prelim): 19
length of query: 226
length of database: 14,973,337
effective HSP length: 95
effective length of query: 131
effective length of database: 9,028,427
effective search space: 1182723937
effective search space used: 1182723937
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)