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= 042417
(249 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 52/168 (30%), Positives = 78/168 (46%), Gaps = 37/168 (22%)
Query: 53 LNDSTITGIKSVDSRYFHINILGCYNLKLNDLKI-TAHAD---SPNTEGIHIGSSNGSEI 108
L +S I+G+K V+S ++ G L L D+ I + D NT+ IG+S I
Sbjct: 112 LTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTI 171
Query: 109 SHSVIATGDDCVSL---------------GHGISVGSLGKGINDEEVVGLTVRNCTFTGT 153
S + + DDCV++ GHG+S+GS+G G +D TV+N TF +
Sbjct: 172 SGATVYNQDDCVAVNSGENIYFSGGYCSGGHGLSIGSVG-GRSDN-----TVKNVTFVDS 225
Query: 154 NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANK 201
I+ N +N + I K NI V S+V + +I TS K
Sbjct: 226 TII--NSDNGVRI--------KTNIDTTGSV--SDVTYKDITLTSIAK 261
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/169 (25%), Positives = 66/169 (39%), Gaps = 38/169 (22%)
Query: 48 IRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGSE 107
I+ N + T+ + ++S FH+ I + + NT+GI SS
Sbjct: 154 IQINKSKNFTLYNVSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNIT 213
Query: 108 ISHSVIATGDDCVSL---------------------GHGISVGSLGKGINDEEVVGLTVR 146
I++S IATGDD V++ GHG+S+GS G+ + V L +
Sbjct: 214 IAYSNIATGDDNVAIKAYKGRAETRNISILHNDFGTGHGMSIGSETMGVYNVTVDDLKMN 273
Query: 147 NCT-----------------FTGTNIVTNNVENPIVIDQLYCPYNKCNI 178
T +N+V NV PIVID +Y N+
Sbjct: 274 GTTNGLRIKSDKSAAGVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSNV 322
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 55/239 (23%), Positives = 95/239 (39%), Gaps = 72/239 (30%)
Query: 53 LNDSTITGIKSVDSRYFHINILGCYNLKLNDLKIT-AHADS---PNTEGIHIGSSNGSEI 108
+ DST GI ++ I++ N+ LND I + D NT+G I S G I
Sbjct: 108 VEDSTFKGINIKNTPVQAISVQ-ATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYI 166
Query: 109 SHSVIATGDDCVSL---------------GHGISVGSLGKGINDEEVVGLTVRNCTFTGT 153
S + + DDC+++ GHG+S+GS+G G +D V +T+ + T +
Sbjct: 167 SGATVKNQDDCIAINSGESISFTGGTCSGGHGLSIGSVG-GRDDNTVKNVTISDSTVS-- 223
Query: 154 NIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNI----------------RGT 197
N N + I +Y S++ SN++ + I GT
Sbjct: 224 -----NSANGVRIKTIYKETGDV-----SEITYSNIQLSGITDYGIVIEQDYENGSPTGT 273
Query: 198 SANKIPCQNIGIGNI---------------------NWVYNGVNVKVEGPETTSLCSNV 235
+ IP ++ + + +W ++GV++ G +T+ C NV
Sbjct: 274 PSTGIPITDVTVDGVTGTLEDDATQVYILCGDGSCSDWTWSGVDLS--GGKTSDKCENV 330
>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 = 57/228 (25%), Positives = 91/228 (39%), Gaps = 49/228 (21%)
Query: 53 LNDSTITGIKSVDS--RYFHIN---ILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGSE 107
L S I G+ +++ + F IN LG Y++ + D A NT+ +GSS G
Sbjct: 108 LKSSNIKGLNVLNTPVQAFSINSATTLGVYDVII-DNSAGDSAGGHNTDAFDVGSSTGVY 166
Query: 108 ISHSVIATGDDCVSL---------------GHGISVGSLGKGINDEEVVGLTVRNCTFT- 151
IS + + DDC+++ GHG+S+GS+G G +D V +T+ N
Sbjct: 167 ISGANVKNQDDCLAINSGTNITFTGGTCSGGHGLSIGSVG-GRSDNTVKTVTISNSKIVN 225
Query: 152 ---GTNIVTNNVENPIVIDQLYCPYNKCNIKVPSQVKTSNVRFNNIRGTSANKIPCQNIG 208
G I T + V Y NI V + + GT N +P +
Sbjct: 226 SDNGVRIKTVSGATGSVSGVTYSGITLSNIAKYGIVIEQDYENGSPTGTPTNGVPITGLT 285
Query: 209 IGNI---------------------NWVYNGVNVKVEGPETTSLCSNV 235
+ I NW ++GV+ V G + ++ CSN+
Sbjct: 286 LSKITGSVASSGTNVYILCASGACSNWKWSGVS--VTGGKKSTKCSNI 331
>pdb|2PYG|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module
pdb|2PYG|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module
pdb|2PYH|A Chain A, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module Complexed With Mannuronan Trisaccharide
pdb|2PYH|B Chain B, Azotobacter Vinelandii Mannuronan C-5 Epimerase Alge4
A-Module Complexed With Mannuronan Trisaccharide
Length = 377
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 24/44 (54%), Gaps = 2/44 (4%)
Query: 2 FNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKY 45
+NVKDFGA+ DG+ DD + + A A V +P G+Y
Sbjct: 3 YNVKDFGALGDGVSDDRASIQAAIDAAYAA--GGGTVYLPAGEY 44
>pdb|3GQ7|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene
Product 12 N- Terminal Fragment
pdb|3GQ8|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene
Product 12 N- Terminal Fragment In Complex With
2-(N-Cyclohexylamino)ethane Sulfonic Acid (Ches)
pdb|3GQ9|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene
Product 12 N- Terminal Fragment In An Apo Form
pdb|3GQA|A Chain A, Crystal Structure Of The Bacteriophage Phi29 Gene
Product 12 N- Terminal Fragment In Complex With Cobalt
Ions
Length = 609
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 7/46 (15%)
Query: 4 VKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIR 49
VK +GA DG+ DD +AFE A V VP G ++ R
Sbjct: 25 VKTYGAKGDGVTDDIRAFEKAIESGF-------PVYVPYGTFMVSR 63
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 3 NVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIR 49
+VK +GA DG+ DD +AFE A V VP G ++ R
Sbjct: 24 SVKTYGAKGDGVTDDIRAFEKAIESGF-------PVYVPYGTFMVSR 63
>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 = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 2/45 (4%)
Query: 3 NVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLS 47
N+ DFGA DG D S++F+ A E G ++VP G +L+
Sbjct: 29 NLLDFGARGDGRTDCSESFKRAIEELSKQGG--GRLIVPEGVFLT 71
>pdb|4GIW|A Chain A, Crystal Structure Of The Run Domain Of Human Nesca
pdb|4GIW|B Chain B, Crystal Structure Of The Run Domain Of Human Nesca
Length = 198
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 2/75 (2%)
Query: 10 VADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTITGIKSVDSRYF 69
VADG+K K T R + W ++++V P S+ + S + + S SR F
Sbjct: 63 VADGLKPFRKDLITGQRRSSPWSVVEASV-KPGSSTRSLGTLYSQVSRLAPLSSSRSR-F 120
Query: 70 HINILGCYNLKLNDL 84
H ILG N K +L
Sbjct: 121 HAFILGLLNTKQLEL 135
>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 = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 72/163 (44%), Gaps = 41/163 (25%)
Query: 31 WDGIKSAVLVPPGKYLSIRFNFLNDSTITGIKSVDSRYFHINILGCYNLKLNDLKIT--- 87
WDG ++ P + + + L+ S+ITG+ ++ L ++++ ND+ T
Sbjct: 115 WDGKGTSGKKKPKFFYA---HGLDSSSITGLNIKNTP------LMAFSVQANDITFTDVT 165
Query: 88 ---AHADSP---NTEGIHIGSSNGSEISHSVIATGDDCVSL---------------GHGI 126
A D+ NT+ +G+S G I + DDC+++ GHG+
Sbjct: 166 INNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSGENIWFTGGTCIGGHGL 225
Query: 127 SVGSLGKGINDEEVVGLTVRNCTFTGTNIVTNNVENPIVIDQL 169
S+GS+G N+ V+N T + + +N EN + I +
Sbjct: 226 SIGSVGDRSNN------VVKNVTIEHSTV--SNSENAVRIKTI 260
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 28.9 bits (63), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 3 NVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTITGIK 62
N+ +GAVAD D A +AW AC G+ V +P G Y + L + T I+
Sbjct: 22 NILSYGAVADNSTDVGPAITSAW-AACKSGGL---VYIPSGNYALNTWVTLTGGSATAIQ 77
>pdb|3EQN|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQN|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a)
pdb|3EQO|A Chain A, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
pdb|3EQO|B Chain B, Crystal Structure Of Beta-1,3-Glucanase From Phanerochaete
Chrysosporium (Lam55a) Gluconolactone Complex
Length = 758
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 25/50 (50%), Gaps = 7/50 (14%)
Query: 3 NVKDFGAVADGIKDDSKAFETAWR------EACNWDGIKSA-VLVPPGKY 45
NVK++GA DG DD+ A + A + C+ + A V PPG Y
Sbjct: 51 NVKNYGAKGDGNTDDTAAIQAAINAGGRCGQGCDSTTTQPALVYFPPGTY 100
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 16/65 (24%)
Query: 94 NTEGIHIGSSNGSEISHSVIATGDDCVSL---------------GHGISVGSLGKGINDE 138
NT+G I SS+ + ++ + DDCV++ GHG+S+GS+G G +D
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSGTNIVVSNMYCSGGHGLSIGSVG-GKSDN 223
Query: 139 EVVGL 143
V G+
Sbjct: 224 VVDGV 228
>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 = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 30/58 (51%), Gaps = 2/58 (3%)
Query: 69 FH-INILGCYNLKLNDLKITAHADSPNTEGIHIGSSNGSEISHSVIATGDDCVSLGHG 125
FH I L +N+ N L I D+ N +GI G+S + ++ TGDDC++ G
Sbjct: 354 FHGIMNLENHNVVANGL-IHQTYDANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAG 410
Score = 26.9 bits (58), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 32/58 (55%), Gaps = 4/58 (6%)
Query: 1 VFNVKDFGAVADGIKDDSKAFETAWREACNWDGIKSAVLVPPGKYLSIRFNFLNDSTI 58
+ NV+DFGA+ DG ++KA + A ++C G + V +P G Y S +D T+
Sbjct: 156 IVNVRDFGAIDDGKTLNTKAIQQAI-DSCK-PGCR--VEIPAGTYKSGALWLKSDMTL 209
>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 = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 16/63 (25%)
Query: 94 NTEGIHIGSSNGSEISHSVIATGDDCVSL---------------GHGISVGSLGKGINDE 138
NT+G + S+N I + ++ DDC+++ GHGIS+GS+ G +
Sbjct: 151 NTDGFDV-SANNVTIQNCIVKNQDDCIAINDGNNIRFENNQCSGGHGISIGSIATGKHVS 209
Query: 139 EVV 141
VV
Sbjct: 210 NVV 212
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
0.317 0.135 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,889,059
Number of Sequences: 62578
Number of extensions: 334274
Number of successful extensions: 715
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 693
Number of HSP's gapped (non-prelim): 22
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
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: 50 (23.9 bits)