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= 040962
(247 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 = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 54/174 (31%), Positives = 81/174 (46%), Gaps = 11/174 (6%)
Query: 15 ITSVNSKNAHISLYGCHKVSIDNIKITAPYQSPNTXXXXXXXXXXXXXTHSSIGTGDDCI 74
++ +NS N H+ + I P + NT +S+I TGDD +
Sbjct: 167 VSLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNV 226
Query: 75 AL-----LSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRI 129
A+ + + NI++ G GHG+S+GS V+ + V + GTTNG+RI
Sbjct: 227 AIKAYKGRAETRNISILHNDFGTGHGMSIGS-----ETMGVYNVTVDDLKMNGTTNGLRI 281
Query: 130 KTWASPQANVASGFTFENIFMSNVENPIVIDQMYCPHGSCNQKITSNVQIKDVT 183
K+ S A V +G + N+ M NV PIVID +Y N S++ KDVT
Sbjct: 282 KSDKS-AAGVVNGVRYSNVVMKNVAKPIVIDTVYEKKEGSNVPDWSDITFKDVT 334
>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 = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 48/121 (39%), Positives = 68/121 (56%), Gaps = 5/121 (4%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
DDC+A+ SG TNI T TC GHG+S+GS+G + + V + + N + NGVRIK
Sbjct: 176 DDCLAINSG-TNITFTGGTCSGGHGLSIGSVGGRS-DNTVKTVTISNSKIVNSDNGVRIK 233
Query: 131 TWASPQANVASGFTFENIFMSNVEN-PIVIDQMYCPHGSCNQKITSNVQIKDVTYRNIWG 189
T + +V SG T+ I +SN+ IVI+Q Y +GS T+ V I +T I G
Sbjct: 234 TVSGATGSV-SGVTYSGITLSNIAKYGIVIEQDY-ENGSPTGTPTNGVPITGLTLSKITG 291
Query: 190 T 190
+
Sbjct: 292 S 292
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 69/121 (57%), Gaps = 5/121 (4%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
DDCIA+ SG + I+ T TC GHG+S+GS+G ++ V + + + T + NGVRIK
Sbjct: 175 DDCIAINSGES-ISFTGGTCSGGHGLSIGSVGGR-DDNTVKNVTISDSTVSNSANGVRIK 232
Query: 131 TWASPQANVASGFTFENIFMSNVEN-PIVIDQMYCPHGSCNQKITSNVQIKDVTYRNIWG 189
T +V+ T+ NI +S + + IVI+Q Y +GS ++ + I DVT + G
Sbjct: 233 TIYKETGDVSE-ITYSNIQLSGITDYGIVIEQDY-ENGSPTGTPSTGIPITDVTVDGVTG 290
Query: 190 T 190
T
Sbjct: 291 T 291
>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 = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 46/147 (31%), Positives = 73/147 (49%), Gaps = 3/147 (2%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
DDC+A+ SG NI T TC GHG+S+GS+G +N V + + + T + N VRIK
Sbjct: 201 DDCLAVNSGE-NIWFTGGTCIGGHGLSIGSVGDRSNNV-VKNVTIEHSTVSNSENAVRIK 258
Query: 131 TWASPQANVASGFTFENIFMSNVENPIVIDQMYCPHGSCNQKITSNVQIKDVTYRNIWGT 190
T + +V S T+ NI MS + + V+ Q G K T+ V I+DV ++ G+
Sbjct: 259 TISGATGSV-SEITYSNIVMSGISDYGVVIQQDYEDGKPTGKPTNGVTIQDVKLESVTGS 317
Query: 191 SSTKVAVNFQCSKTFPCENIVLQDIYL 217
+ + + C + D+ +
Sbjct: 318 VDSGATEIYLLCGSGSCSDWTWDDVKV 344
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 46/162 (28%), Positives = 80/162 (49%), Gaps = 7/162 (4%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
DDC+A+ SG TNI V+++ C GHG+S+GS+G ++ V G+ + + NG RIK
Sbjct: 188 DDCVAVTSG-TNIVVSNMYCSGGHGLSIGSVGGKSDNV-VDGVQFLSSQVVNSQNGCRIK 245
Query: 131 TWASPQANVASGFTFENIFMSNVENPIVIDQMYCPHGSCNQKITSNVQIKDVTYRNIWGT 190
+ + + + T++NI ++N+ V Q +G K T+ V+I ++ + + GT
Sbjct: 246 SNSGATGTI-NNVTYQNIALTNISTYGVDVQQDYLNGGPTGKPTNGVKISNIKFIKVTGT 304
Query: 191 SSTKVAVNFQCSKTFPCENIVLQDIYLVHNGRDGAATSSCNF 232
++ F C + G+ TSSCN+
Sbjct: 305 VASSAQDWFILCGDGSCSGFTFSGNAITGGGK----TSSCNY 342
>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 = 53.1 bits (126), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 58/194 (29%), Positives = 92/194 (47%), Gaps = 21/194 (10%)
Query: 7 VTNSRISGITSVNSKNAHISLYGCHKVSIDNIKITAPYQSPN----TXXXXXXXXXXXXX 62
+TNS ISG+ VNS S+ G +++ +I I N T
Sbjct: 112 LTNSVISGLKIVNSPVQVFSVAGSDYLTLKDITIDNSDGDDNGGHNTDAFDIGTSTYVTI 171
Query: 63 THSSIGTGDDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRG 122
+ +++ DDC+A+ SG NI + C GHG+S+GS+G ++ V+N TF
Sbjct: 172 SGATVYNQDDCVAVNSGE-NIYFSGGYCSGGHGLSIGSVGGRSDN------TVKNVTFVD 224
Query: 123 TT-----NGVRIKTWASPQANVASGFTFENIFMSNVEN-PIVIDQMYCPHGSCNQKITSN 176
+T NGVRIKT +V S T+++I ++++ IV+ Q Y G + T+
Sbjct: 225 STIINSDNGVRIKTNIDTTGSV-SDVTYKDITLTSIAKYGIVVQQNY---GDTSSTPTTG 280
Query: 177 VQIKDVTYRNIWGT 190
V I D N+ G+
Sbjct: 281 VPITDFVLDNVHGS 294
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/158 (27%), Positives = 70/158 (44%), Gaps = 31/158 (19%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
D+C+ + S + NI V + C G ++GSLG + +V + RN +
Sbjct: 197 DECVTVKSPANNILVESIYCNWSGGCAMGSLGA---DTDVTDIVYRN-----------VY 242
Query: 131 TWASPQ-----ANVASGFTFENIFMSNV-----ENPIVIDQMYCPHGSCNQKITSNVQIK 180
TW+S Q +N SG T N+ + N + ID + S VQ+
Sbjct: 243 TWSSNQMYMIKSNGGSG-TVSNVLLENFIGHGNAYSLDIDGYWS---SMTAVAGDGVQLN 298
Query: 181 DVTYRNIWGTS---STKVAVNFQCSKTFPCENIVLQDI 215
++T +N GT +T+ + CS T PC ++ L+DI
Sbjct: 299 NITVKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDI 336
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 50/94 (53%), Gaps = 5/94 (5%)
Query: 71 DDCIALLSGSTNINVTDVTCGPGHGISVGSLGRYANERNVHGLAVRNCTFRGTTNGVRIK 130
DDCIA+ G+ NI + C GHGIS+GS+ A ++V + ++ T + GVRIK
Sbjct: 173 DDCIAINDGN-NIRFENNQCSGGHGISIGSI---ATGKHVSNVVIKGNTVTRSMYGVRIK 228
Query: 131 TWASPQANVASGFTFENIFMSNVEN-PIVIDQMY 163
+ + SG T++ +S + ++I Q Y
Sbjct: 229 AQRTATSASVSGVTYDANTISGIAKYGVLISQSY 262
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 0.132 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,012,586
Number of Sequences: 62578
Number of extensions: 261800
Number of successful extensions: 556
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 536
Number of HSP's gapped (non-prelim): 11
length of query: 247
length of database: 14,973,337
effective HSP length: 96
effective length of query: 151
effective length of database: 8,965,849
effective search space: 1353843199
effective search space used: 1353843199
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: 50 (23.9 bits)