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= 046362
(334 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 = 89.4 bits (220), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 59/216 (27%), Positives = 98/216 (45%), Gaps = 12/216 (5%)
Query: 30 NFTIQGNGIVDGQG--------FEWWGGSQSNSIQKKSKHIPEMKPTALRFYASYNVTVR 81
N I G G +DGQG WW + ++K ++ P + ++ S N T+
Sbjct: 110 NSGIYGPGTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRL----IQINKSKNFTLY 165
Query: 82 DIKINNSPLCHLKFDSSGGIKVKNIHISSPENSPNTDGIHLQNTKDVEIQHSDIACGDDC 141
++ + NSP H+ F G I +P + NTDGI ++K++ I +S+IA GDD
Sbjct: 166 NVSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDN 225
Query: 142 VSIQTGCSNVHIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQNTLAGVRIKTWQ 201
V+I+ +IS V ++ V+ + + T G+RIK+ +
Sbjct: 226 VAIKAYKGRAETRNISILHNDFGTGHGMSIGSETMGVYNVTVDDLKMNGTTNGLRIKSDK 285
Query: 202 GGIGSVKNVSFSSIQVWDVKVPIIIDQYYCDKHLCN 237
G V V +S++ + +V PI+ID Y K N
Sbjct: 286 SAAGVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSN 321
>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 = 64.7 bits (156), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 59/247 (23%), Positives = 110/247 (44%), Gaps = 32/247 (12%)
Query: 39 VDGQGFEWWGGSQSNSIQKKSKHIPEMKPTALRFYASYNVTVRDIKINNSPLCHLKFDSS 98
+D QG WW K + + KP ++ + ++ + + N+P+ +S+
Sbjct: 80 IDCQGSRWW--------DSKGSNGGKTKPKFFYAHSLKSSNIKGLNVLNTPVQAFSINSA 131
Query: 99 GGIKVKNIHISSPENSP----NTDGIHLQNTKDVEIQHSDIACGDDCVSIQTGCSNVHIH 154
+ V ++ I + NTD + ++ V I +++ DDC++I +G +N+
Sbjct: 132 TTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSG-TNITFT 190
Query: 155 HISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQNTLA-----GVRIKTWQGGIGSVKN 209
+C SV SD V+ +++ N+ GVRIKT G GSV
Sbjct: 191 GGTCSGGHGLSI------GSVGGRSDNTVKTVTISNSKIVNSDNGVRIKTVSGATGSVSG 244
Query: 210 VSFSSIQVWDV-KVPIIIDQYYCDKHLCNNQTGAVAISGVEFNQIIGTYSVQPIHL---- 264
V++S I + ++ K I+I+Q Y + T V I+G+ ++I G+ + ++
Sbjct: 245 VTYSGITLSNIAKYGIVIEQDYENGSPTGTPTNGVPITGLTLSKITGSVASSGTNVYILC 304
Query: 265 ---ACSN 268
ACSN
Sbjct: 305 ASGACSN 311
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 68/261 (26%), Positives = 109/261 (41%), Gaps = 42/261 (16%)
Query: 70 LRFYASYNVTVRDIKINNSPLCHLKFDSSGGIKVKNIHISSPENSPNTDGIHLQNTK--- 126
LR + +V DI + ++P H D+ +V N+ I N DGI + +
Sbjct: 130 LRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRG-GNEGGLDGIDVWGSNIWV 188
Query: 127 -DVEIQHSDIACGDDCVSIQTGCSNVHIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEK 185
DVE+ + D +CV++++ +N+ + I C D V +DIV
Sbjct: 189 HDVEVTNKD-----ECVTVKSPANNILVESIYCNWSGGCAMGSLGADTDV---TDIVYRN 240
Query: 186 ISLQNTLAGVRIKTWQGGIGSVKNVSFSSIQVWDVKVPIIIDQYYCDKHLCNNQTGAVAI 245
+ ++ IK+ GG G+V NV + + ID Y+ AVA
Sbjct: 241 VYTWSSNQMYMIKS-NGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMT-------AVAG 292
Query: 246 SGVEFNQII-----GT----YSVQPIHLACSNSVPCSDVDLIDIQLKPSSKYQSFQQALC 296
GV+ N I GT + PI + CS++ PC+D+ L DI + S S + LC
Sbjct: 293 DGVQLNNITVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAIWTESG--SSELYLC 350
Query: 297 WNSYGKSQAPLVPSSIDYCLR 317
++YG YCL+
Sbjct: 351 RSAYGSG----------YCLK 361
>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 = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 56/255 (21%), Positives = 108/255 (42%), Gaps = 29/255 (11%)
Query: 32 TIQGNGIVDGQGFEWWGGSQSNSIQKKSKHIPEMKPTALRFYASYNVTVRDIKINNSPLC 91
T+ ++DG G WW K + + KP + + + T + I I N+P+
Sbjct: 73 TMADGAVIDGDGSRWW--------DSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQ 124
Query: 92 HLKFDSSGGIKVKNIHIS--SPENSP-------NTDGIHLQNTKDVEIQHSDIACGDDCV 142
+ ++ N+H++ + +NS NTDG + + V I + + DDC+
Sbjct: 125 AIS------VQATNVHLNDFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCI 178
Query: 143 SIQTGCSNVHIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQNTLAGVRIKTWQG 202
+I +G S +D + V ++ + ++ N+ GVRIKT
Sbjct: 179 AINSGESISFTGGTCSGGHGLSIGSVGGRDDNT--VKNVTISDSTVSNSANGVRIKTIYK 236
Query: 203 GIGSVKNVSFSSIQVWDV-KVPIIIDQYYCDKHLCNNQTGAVAISGVEFNQIIGTYS--V 259
G V +++S+IQ+ + I+I+Q Y + + + I+ V + + GT
Sbjct: 237 ETGDVSEITYSNIQLSGITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLEDDA 296
Query: 260 QPIHLACSNSVPCSD 274
+++ C + CSD
Sbjct: 297 TQVYILCGDG-SCSD 310
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 57.8 bits (138), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 65/250 (26%), Positives = 108/250 (43%), Gaps = 38/250 (15%)
Query: 30 NFTIQGNG--IVDGQGFEWWGG--SQSNSIQKKSKHIPEMKPTALRFYASYNVTVRDIKI 85
N TI G ++DG G +W G S SNS QK I K T N + ++ I
Sbjct: 70 NITITGASGHVIDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTG-------NSKITNLNI 122
Query: 86 NNSP-------------LCHLKFDSSGGIKVKNIHISSPENSPNTDGIHLQNTKDVEIQH 132
N P + L D+ G K N S + NTDG + ++ V + +
Sbjct: 123 QNWPVHCFDITGSSQLTISGLILDNRAGDK-PNAKSGSLPAAHNTDGFDISSSDHVTLDN 181
Query: 133 SDIACGDDCVSIQTGCSNVHIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQ--- 189
+ + DDCV++ +G +N+ + ++ C SV SD VV+ +
Sbjct: 182 NHVYNQDDCVAVTSG-TNIVVSNMYCSGGHGLSI------GSVGGKSDNVVDGVQFLSSQ 234
Query: 190 --NTLAGVRIKTWQGGIGSVKNVSFSSIQVWDVKV-PIIIDQYYCDKHLCNNQTGAVAIS 246
N+ G RIK+ G G++ NV++ +I + ++ + + Q Y + T V IS
Sbjct: 235 VVNSQNGCRIKSNSGATGTINNVTYQNIALTNISTYGVDVQQDYLNGGPTGKPTNGVKIS 294
Query: 247 GVEFNQIIGT 256
++F ++ GT
Sbjct: 295 NIKFIKVTGT 304
>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 = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 63/259 (24%), Positives = 111/259 (42%), Gaps = 24/259 (9%)
Query: 38 IVDGQGFEWWGGSQSNSIQKKSKHIPEMKPTALRFYASY--NVTVRDIKINNSPLCHLKF 95
+++ G WW G + S +KK K FYA + ++ + I N+PL
Sbjct: 106 LINCDGARWWDG-KGTSGKKKPKF----------FYAHGLDSSSITGLNIKNTPLMAFSV 154
Query: 96 DSSGGIKVKNIHISSPENSP----NTDGIHLQNTKDVEIQHSDIACGDDCVSIQTGCSNV 151
++ I ++ I++ + NTD + N+ V I + DDC+++ +G N+
Sbjct: 155 QAND-ITFTDVTINNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSG-ENI 212
Query: 152 HIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQNTLAGVRIKTWQGGIGSVKNVS 211
+C D+S V ++ +E ++ N+ VRIKT G GSV ++
Sbjct: 213 WFTGGTCIGGHGLSIGSV-GDRSNNVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEIT 271
Query: 212 FSSIQVWDVK-VPIIIDQYYCDKHLCNNQTGAVAISGVEFNQIIGTY--SVQPIHLACSN 268
+S+I + + ++I Q Y D T V I V+ + G+ I+L C
Sbjct: 272 YSNIVMSGISDYGVVIQQDYEDGKPTGKPTNGVTIQDVKLESVTGSVDSGATEIYLLC-G 330
Query: 269 SVPCSDVDLIDIQLKPSSK 287
S CSD D+++ K
Sbjct: 331 SGSCSDWTWDDVKVTGGKK 349
>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 = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 67/262 (25%), Positives = 114/262 (43%), Gaps = 29/262 (11%)
Query: 39 VDGQGFEWWGGSQSNSIQKKSKHIPEMKPTALRFYASYNVT---VRDIKINNSPLCHLKF 95
++G G WW G N + K K F+A++++T + +KI NSP+
Sbjct: 84 INGDGSRWWDGEGGNGGKTKPK-----------FFAAHSLTNSVISGLKIVNSPVQVFSV 132
Query: 96 DSSGGIKVKNIHISSPENSP----NTDGIHLQNTKDVEIQHSDIACGDDCVSIQTGCSNV 151
S + +K+I I + + NTD + + V I + + DDCV++ +G N+
Sbjct: 133 AGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENI 191
Query: 152 HIHHISCXXXXXXXXXXXXKDKSVACVSDIVVEKISLQNTLAGVRIKTWQGGIGSVKNVS 211
+ C +S V ++ ++ N+ GVRIKT GSV +V+
Sbjct: 192 YFSGGYCSGGHGLSIGSVGG-RSDNTVKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVT 250
Query: 212 FSSIQVWDV-KVPIIIDQYYCDKHLCNNQTGAVAISGVEFNQIIGTY--SVQPIHLACSN 268
+ I + + K I++ Q Y D + T V I+ + + G+ S I ++C
Sbjct: 251 YKDITLTSIAKYGIVVQQNYGDTS--STPTTGVPITDFVLDNVHGSVVSSGTNILISC-G 307
Query: 269 SVPCSDVDLIDIQL---KPSSK 287
S CSD D+ + K SSK
Sbjct: 308 SGSCSDWTWTDVSVSGGKTSSK 329
>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 = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 43/148 (29%), Positives = 64/148 (43%), Gaps = 31/148 (20%)
Query: 29 HNFTIQGNGIVDGQG--FEWW------------GGSQSNSIQKKSKHIPE---------- 64
N I G+G++DG WW G KK K + E
Sbjct: 123 ENVAITGSGVLDGSADNEHWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVF 182
Query: 65 -----MKPTALRFYASYNVTVRDIKINNSPLCHLKFDSSGGIKVKNIHISSPENSPNTDG 119
++P+ ++FY NV V +KI NSP+ + S + ++NI ISS PN DG
Sbjct: 183 GKGHYLRPSFVQFYRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISS--TGPNNDG 240
Query: 120 IHLQNTKDVEIQHSDIACGDDCVSIQTG 147
I ++ K + I+ GDD V I++G
Sbjct: 241 IDPESCKYMLIEKCRFDTGDDSVVIKSG 268
>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 = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 27/131 (20%), Positives = 52/131 (39%), Gaps = 7/131 (5%)
Query: 103 VKNIHISSPENSPNTDGIHLQNTKDVEIQHSDIACGDDCVSIQTGCSNVHIHHISCXXXX 162
V N I ++ N DGI N+++V + ++ GDDC++ G
Sbjct: 366 VANGLIHQTYDANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAW 425
Query: 163 XXXXXXXXKDKSV-------ACVSDIVVEKISLQNTLAGVRIKTWQGGIGSVKNVSFSSI 215
++ A + DI+ E + T G+R K+ G +NV+F +
Sbjct: 426 LFNNYFRMGHGAIVTGSHTGAWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNN 485
Query: 216 QVWDVKVPIII 226
+ D+ +++
Sbjct: 486 AMRDLAKQVMV 496
>pdb|3LRE|A Chain A, Crystal Structure Analysis Of Human Kinesin-8 Motor Domain
pdb|3LRE|B Chain B, Crystal Structure Analysis Of Human Kinesin-8 Motor Domain
Length = 355
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 28/47 (59%), Gaps = 1/47 (2%)
Query: 68 TALRFYASYNVTVRDIKINNSPLCHLKFDSSGGIKVKNIHISSPENS 114
TA+ + YN +RD+ +N+ PL ++ D+ G+ V + + P++S
Sbjct: 155 TAVSYLEVYNEQIRDLLVNSGPLA-VREDTQKGVVVHGLTLHQPKSS 200
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
0.318 0.134 0.422
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,480,435
Number of Sequences: 62578
Number of extensions: 437129
Number of successful extensions: 917
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 892
Number of HSP's gapped (non-prelim): 12
length of query: 334
length of database: 14,973,337
effective HSP length: 99
effective length of query: 235
effective length of database: 8,778,115
effective search space: 2062857025
effective search space used: 2062857025
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)