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= 020062
(331 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 = 109 bits (272), Expect = 2e-24, Method: Compositional matrix adjust.
Identities = 73/215 (33%), Positives = 111/215 (51%), Gaps = 9/215 (4%)
Query: 86 NSPFWTIHPVYCRNVVIKGMTILAPLNAPNTDGIDPDSSTNVCIEDCYIESGDDLVAVKS 145
NSP W IHPV NV+I+ + I + PN DGIDP+S + IE C ++GDD V +KS
Sbjct: 210 NSPMWCIHPVLSENVIIRNIEISS--TGPNNDGIDPESCKYMLIEKCRFDTGDDSVVIKS 267
Query: 146 GWDHYGIAMARPSSNIIVR-RVSGTTPTCSGVGIGSEMSGGIFNVTVDQLHVWDAAAGVR 204
G D G + PS I+VR + + + G+ IGSEMSGG+ NV + +R
Sbjct: 268 GRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSEMSGGVRNVVARNNVYMNVERALR 327
Query: 205 IKTDKGRGGYIENI-TIRNIKMERVKIPIRISRGSNDHPDEGWDPKALPKIRGISFVNVV 263
+KT+ RGGY+ENI I N+ + + IRI+ ++ E LP +R + N+
Sbjct: 328 LKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRYDNEEGE-----YLPVVRSVFVKNLK 382
Query: 264 SVNTTKAPVLAGIIGTQFEEICMKNVSLLGLAPSA 298
+ A + G+ ++I + + + G S
Sbjct: 383 ATGGKYAVRIEGLENDYVKDILISDTIIEGAKISV 417
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 95.5 bits (236), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 92/277 (33%), Positives = 128/277 (46%), Gaps = 33/277 (11%)
Query: 43 GTIDGQGQM--------WWDLWWN---RTLKHTRGHLVELMXXXXXXXXXXTFRNSPFWT 91
GTIDGQG + WW+L + + LK L+++ + NSP +
Sbjct: 117 GTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNFTLYNVSLINSPNF- 175
Query: 92 IHPVYCRNVVIKG--MTILAPLNAPNTDGIDPDSSTNVCIEDCYIESGDDLVAVKSGWDH 149
H V+ TI P A NTDGIDP SS N+ I I +GDD VA+K+ +
Sbjct: 176 -HVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKA---Y 231
Query: 150 YGIAMARPSSNIIVRRVSGTTPTCSGVGIGSEMSGGIFNVTVDQLHVWDAAAGVRIKTDK 209
G A R S I+ G T G+ IGSE + G++NVTVD L + G+RIK+DK
Sbjct: 232 KGRAETRNIS--ILHNDFG---TGHGMSIGSE-TMGVYNVTVDDLKMNGTTNGLRIKSDK 285
Query: 210 GRGGYIENITIRNIKMERVKIPIRISRGSNDHPDEGWDPKALPKIRGISFVNVVSVNTTK 269
G + + N+ M+ V PI I D E + +P I+F +V S T
Sbjct: 286 SAAGVVNGVRYSNVVMKNVAKPIVI-----DTVYEKKEGSNVPDWSDITFKDVTS-ETKG 339
Query: 270 APVLAGIIGTQFEEICMKNVSLLGLAPSAKWQCQFVS 306
VL G + E+ MKNV L + WQ + V+
Sbjct: 340 VVVLNGENAKKPIEVTMKNVK---LTSDSTWQIKNVN 373
>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 = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 59/220 (26%), Positives = 85/220 (38%), Gaps = 39/220 (17%)
Query: 19 RLGGRHISLIHGDHLTNVIITGYNGTIDGQGQMWWDLWWNRTLKHTRGHLVELMXXXXXX 78
R GG+ +++ D IDG G WWD K T+ + +
Sbjct: 64 RFGGKDLTVTMAD----------GAVIDGDGSRWWDSKGTNGGK-TKPKFMYIHDVEDST 112
Query: 79 XXXXTFRNSPFWTIHPVYCRNVVIKGMTILAPLN----APNTDGIDPDSSTNVCIEDCYI 134
+N+P I V NV + TI NTDG D ST V I +
Sbjct: 113 FKGINIKNTPVQAI-SVQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATV 171
Query: 135 ESGDDLVAVKSGWDHYGIAMARPSSNIIVRRVSGTTPTCSG-----VG-IGSEMSGGIFN 188
++ DD +A+ SG +S T TCSG +G +G + N
Sbjct: 172 KNQDDCIAINSG-----------------ESISFTGGTCSGGHGLSIGSVGGRDDNTVKN 214
Query: 189 VTVDQLHVWDAAAGVRIKTDKGRGGYIENITIRNIKMERV 228
VT+ V ++A GVRIKT G + IT NI++ +
Sbjct: 215 VTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGI 254
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 54.7 bits (130), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 62/224 (27%), Positives = 94/224 (41%), Gaps = 52/224 (23%)
Query: 34 TNVIITGYNG-TIDGQGQMWWD-LWWNRTLKHTRGHLVELMXXXXXXXXXXTFRNSPFWT 91
+N+ ITG +G IDG GQ +WD N H + + T N W
Sbjct: 69 SNITITGASGHVIDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTGNSKI--TNLNIQNW- 125
Query: 92 IHPVYCRNVVIKGMTILAPL------------------NAPNTDGIDPDSSTNVCIEDCY 133
PV+C ++ ++ L A NTDG D SS +V +++ +
Sbjct: 126 --PVHCFDITGSSQLTISGLILDNRAGDKPNAKSGSLPAAHNTDGFDISSSDHVTLDNNH 183
Query: 134 IESGDDLVAVKSGWDHYGIAMARPSSNIIVRRVSGTTPTCS---GVGIGSEMSGGIFNVT 190
+ + DD VAV SG +NI+V + CS G+ IGS GG +
Sbjct: 184 VYNQDDCVAVTSG------------TNIVVSNM-----YCSGGHGLSIGSV--GGKSDNV 224
Query: 191 VDQL-----HVWDAAAGVRIKTDKGRGGYIENITIRNIKMERVK 229
VD + V ++ G RIK++ G G I N+T +NI + +
Sbjct: 225 VDGVQFLSSQVVNSQNGCRIKSNSGATGTINNVTYQNIALTNIS 268
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 53/206 (25%), Positives = 81/206 (39%), Gaps = 29/206 (14%)
Query: 34 TNVIITGYNG-TIDGQGQMWWDLWWNRTLKHTRGHLVELMXXXXXXXXXXTFRNSPF--W 90
TN+ I G +G +ID QG WWD + K T+ N+P +
Sbjct: 68 TNININGASGHSIDCQGSRWWDSKGSNGGK-TKPKFFYAHSLKSSNIKGLNVLNTPVQAF 126
Query: 91 TIHPVYCRNV--VIKGMTILAPLNAPNTDGIDPDSSTNVCIEDCYIESGDDLVAVKSGWD 148
+I+ V VI + NTD D SST V I +++ DD +A+ SG
Sbjct: 127 SINSATTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSG-- 184
Query: 149 HYGIAMARPSSNIIVRRVSGTTPTCSG-----VG-IGSEMSGGIFNVTVDQLHVWDAAAG 202
++ T TCSG +G +G + VT+ + ++ G
Sbjct: 185 ---------------TNITFTGGTCSGGHGLSIGSVGGRSDNTVKTVTISNSKIVNSDNG 229
Query: 203 VRIKTDKGRGGYIENITIRNIKMERV 228
VRIKT G G + +T I + +
Sbjct: 230 VRIKTVSGATGSVSGVTYSGITLSNI 255
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 53/206 (25%), Positives = 81/206 (39%), Gaps = 29/206 (14%)
Query: 34 TNVIITGYNG-TIDGQGQMWWDLWWNRTLKHTRGHLVELMXXXXXXXXXXTFRNSPFWTI 92
+++ ITG +G +I+G G WWD K T+ NSP
Sbjct: 72 SDLTITGASGHSINGDGSRWWDGEGGNGGK-TKPKFFAAHSLTNSVISGLKIVNSPVQVF 130
Query: 93 HPVYCRNVVIKGMTILAP----LNAPNTDGIDPDSSTNVCIEDCYIESGDDLVAVKSGWD 148
+ +K +TI NTD D +ST V I + + DD VAV SG +
Sbjct: 131 SVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSGEN 190
Query: 149 HYGIAMARPSSNIIVRRVSGTTPTCSG-----VG-IGSEMSGGIFNVTVDQLHVWDAAAG 202
Y SG CSG +G +G + NVT + ++ G
Sbjct: 191 IY---------------FSG--GYCSGGHGLSIGSVGGRSDNTVKNVTFVDSTIINSDNG 233
Query: 203 VRIKTDKGRGGYIENITIRNIKMERV 228
VRIKT+ G + ++T ++I + +
Sbjct: 234 VRIKTNIDTTGSVSDVTYKDITLTSI 259
>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 = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 42/174 (24%), Positives = 66/174 (37%), Gaps = 11/174 (6%)
Query: 65 RGHLVELMXXXXXXXXXXTFRNSPFWTIHPVYCRNVVIKGMTILAPLNAPNTDGIDPDSS 124
R L+ L T RN F I + NVV G+ I +A N DGI+ +S
Sbjct: 330 RSSLMTLRGVENVYLAGFTVRNPAFHGIMNLENHNVVANGL-IHQTYDANNGDGIEFGNS 388
Query: 125 TNVCIEDCYIESGDDLVAVKSGWDHYGIAMARPSS----NIIVRRVSGTTPTCSGVGIGS 180
NV + + + ++GDD + +G N R G T GS
Sbjct: 389 QNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAWLFNNYFRMGHGAIVT------GS 442
Query: 181 EMSGGIFNVTVDQLHVWDAAAGVRIKTDKGRGGYIENITIRNIKMERVKIPIRI 234
I ++ + ++ G+R K+ GG N+T RN M + + +
Sbjct: 443 HTGAWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNNAMRDLAKQVMV 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 = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 56/220 (25%), Positives = 84/220 (38%), Gaps = 29/220 (13%)
Query: 18 ERLGGRHISLIHGDHLTNVIITGYNG-TIDGQGQMWWDLWWNRTLKHTRGHLVELMXXXX 76
E G IS+ G+H+T +TG +G I+ G WWD T +
Sbjct: 83 EEWAGPLISM-SGEHIT---VTGASGHLINCDGARWWD--GKGTSGKKKPKFFYAHGLDS 136
Query: 77 XXXXXXTFRNSPFWTIHPVYCRNVVIKGMTILAP----LNAPNTDGIDPDSSTNVCIEDC 132
+N+P V ++ +TI NTD D +S V I
Sbjct: 137 SSITGLNIKNTPLMAF-SVQANDITFTDVTINNADGDTQGGHNTDAFDVGNSVGVNIIKP 195
Query: 133 YIESGDDLVAVKSGWDHYGIAMARPSSNIIVRRVSGTTPTCSGVGIGS---EMSGGIFNV 189
++ + DD +AV SG + + GT G+ IGS + + NV
Sbjct: 196 WVHNQDDCLAVNSGEN--------------IWFTGGTCIGGHGLSIGSVGDRSNNVVKNV 241
Query: 190 TVDQLHVWDAAAGVRIKTDKGRGGYIENITIRNIKMERVK 229
T++ V ++ VRIKT G G + IT NI M +
Sbjct: 242 TIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMSGIS 281
>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 = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 45/96 (46%), Gaps = 16/96 (16%)
Query: 115 NTDGIDPDSSTNVCIEDCYIESGDDLVAVKSGWDHYGIAMARPSSNIIVRRVSGTTPTCS 174
NTDG D S+ NV I++C +++ DD +A+ G + +R +
Sbjct: 151 NTDGFDV-SANNVTIQNCIVKNQDDCIAINDGNN--------------IRFENNQCSGGH 195
Query: 175 GVGIGSEMSGG-IFNVTVDQLHVWDAAAGVRIKTDK 209
G+ IGS +G + NV + V + GVRIK +
Sbjct: 196 GISIGSIATGKHVSNVVIKGNTVTRSMYGVRIKAQR 231
>pdb|3K1Q|B Chain B, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1027
Score = 29.3 bits (64), Expect = 3.4, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 1/87 (1%)
Query: 87 SPFWTIHPVYCRNVVIKGMTILAPLNAPNTDGIDPDSSTNVCIEDC-YIESGDDLVAVKS 145
+PF+ H V+ +T+ P P T + D TNV + + GD V +++
Sbjct: 556 TPFYIQHMCPTELSVLASVTVTPPFQVPFTRLVQNDVITNVLVARVDPAQRGDAAVDIRA 615
Query: 146 GWDHYGIAMARPSSNIIVRRVSGTTPT 172
+ A+ + I+V + G T T
Sbjct: 616 THATFAAALPVDPAAIVVAMLCGQTET 642
>pdb|3K1Q|C Chain C, Backbone Model Of An Aquareovirus Virion By Cryo-Electron
Microscopy And Bioinformatics
Length = 1196
Score = 28.9 bits (63), Expect = 3.7, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 1/87 (1%)
Query: 87 SPFWTIHPVYCRNVVIKGMTILAPLNAPNTDGIDPDSSTNVCIEDC-YIESGDDLVAVKS 145
+PF+ H V+ +T+ P P T + D TNV + + GD V +++
Sbjct: 725 TPFYIQHMCPTELSVLASVTVTPPFQVPFTRLVQNDVITNVLVARVDPAQRGDAAVDIRA 784
Query: 146 GWDHYGIAMARPSSNIIVRRVSGTTPT 172
+ A+ + I+V + G T T
Sbjct: 785 THATFAAALPVDPAAIVVAMLCGQTET 811
>pdb|3IYL|X Chain X, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
pdb|3IYL|Y Chain Y, Atomic Cryoem Structure Of A Nonenveloped Virus Suggests
How Penetration Protein Is Primed For Cell Entry
Length = 1214
Score = 28.9 bits (63), Expect = 3.8, Method: Composition-based stats.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 1/87 (1%)
Query: 87 SPFWTIHPVYCRNVVIKGMTILAPLNAPNTDGIDPDSSTNVCIEDC-YIESGDDLVAVKS 145
+PF+ H V+ +T+ P P T + D TNV + + GD V +++
Sbjct: 743 TPFYIQHMCPTELSVLASVTVTPPFQVPFTRLVQNDVITNVLVARVDPAQRGDAAVDIRA 802
Query: 146 GWDHYGIAMARPSSNIIVRRVSGTTPT 172
+ A+ + I+V + G T T
Sbjct: 803 THATFAAALPVDPAAIVVAMLCGQTET 829
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
0.320 0.138 0.448
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,576,719
Number of Sequences: 62578
Number of extensions: 445844
Number of successful extensions: 773
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 744
Number of HSP's gapped (non-prelim): 23
length of query: 331
length of database: 14,973,337
effective HSP length: 99
effective length of query: 232
effective length of database: 8,778,115
effective search space: 2036522680
effective search space used: 2036522680
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 52 (24.6 bits)