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= 041224
(400 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 94.7 bits (234), Expect = 7e-20, Method: Compositional matrix adjust.
Identities = 81/262 (30%), Positives = 127/262 (48%), Gaps = 23/262 (8%)
Query: 134 IDGKGASWWSNKQNQ----RPTALSFGSCNNLVFRGLTHVDSPGNHISVYGCNDVSISNL 189
IDG G+ WW +K +P + + F+G+ ++P ISV N V +++
Sbjct: 80 IDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATN-VHLNDF 138
Query: 190 KIIAPESSPN----TDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNIAVTGVICGPGH 245
I + N TDG DI+ S+ V I T+ DDC+AI + S I+ TG C GH
Sbjct: 139 TIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGES-ISFTGGTCSGGH 197
Query: 246 GISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRISFERIRLES-SD 304
G+SIGS+G + V++V + D T + NG RIKT +G I++ I+L +D
Sbjct: 198 GLSIGSVGGRDDNT-VKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLSGITD 256
Query: 305 NPIIIDQYY--CGPNGDCKNQTSAVKVSDVSYIGFQGTSSTEEA-VQLSCSESVGCTDIK 361
I+I+Q Y P G ++ + ++DV+ G GT + V + C + C+D
Sbjct: 257 YGIVIEQDYENGSPTG---TPSTGIPITDVTVDGVTGTLEDDATQVYILCGDG-SCSDWT 312
Query: 362 INNIDITHSDSGKDTRASCINA 383
+ +D+ SG T C N
Sbjct: 313 WSGVDL----SGGKTSDKCENV 330
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 92.0 bits (227), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 81/263 (30%), Positives = 119/263 (45%), Gaps = 32/263 (12%)
Query: 127 TVNGNG--KIDGKGASWWSN---------KQNQRPTALSFGSCNNLVFRGLTHVDSPGNH 175
T++G G K+ K SWW KQN P + N ++ ++SP H
Sbjct: 118 TIDGQGGVKLQDKKVSWWELAADAKVKKLKQNT-PRLIQINKSKNFTLYNVSLINSPNFH 176
Query: 176 ISVYGCNDVSISNLKIIAPESSPNTDGIDITHSSNVQIRDCTIATGDDCVAIG-----TD 230
+ + + I P ++ NTDGID S N+ I IATGDD VAI +
Sbjct: 177 VVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGRAE 236
Query: 231 TSNIAVTGVICGPGHGISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHA 290
T NI++ G GHG+SIGS T V +V V D GT NG RIK+ + +G
Sbjct: 237 TRNISILHNDFGTGHGMSIGS-----ETMGVYNVTVDDLKMNGTTNGLRIKSDKSAAGVV 291
Query: 291 RRISFERIRLESSDNPIIIDQYYCGPNGDCKNQTSAVKVSDVSYIGFQG-TSSTEEAVQL 349
+ + + +++ PI+ID Y G V D S I F+ TS T+ V L
Sbjct: 292 NGVRYSNVVMKNVAKPIVIDTVYEKKEGS--------NVPDWSDITFKDVTSETKGVVVL 343
Query: 350 SCSESVGCTDIKINNIDITHSDS 372
+ + ++ + N+ +T SDS
Sbjct: 344 NGENAKKPIEVTMKNVKLT-SDS 365
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 87.0 bits (214), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 86/357 (24%), Positives = 160/357 (44%), Gaps = 24/357 (6%)
Query: 35 VIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSSSIN 94
++ +GAV D TD A AW + C S + +P+G L V+ G S+
Sbjct: 23 ILSYGAVADNSTDVGPAITSAWAA-CKS---GGLVYIPSGNYALNTWVTLTG---GSATA 75
Query: 95 VQIQGNIVAPHSSAWDG---HDKKKWLLFSNVNGLTVNGNGKIDGKGASWWSNKQNQRPT 151
+Q+ G I +++ + D + LFS+ + V G G + ++ + R T
Sbjct: 76 IQLDGIIYRTGTASGNMIAVTDTTDFELFSSTSKGAVQGFGYVYHAEGTY--GARILRLT 133
Query: 152 ALSFGSCNNLVFRGLTHVDSPGNHISVYGCNDVSISNLKIIAPESSPNTDGIDITHSSNV 211
++ S ++++ VD+P H ++ C+D + N+ I DGID+ SN+
Sbjct: 134 DVTHFSVHDIIL-----VDAPAFHFTMDTCSDGEVYNMAIRGGNEG-GLDGIDV-WGSNI 186
Query: 212 QIRDCTIATGDDCVAIGTDTSNIAVTGVICGPGHGISIGSLGANGGTSIVEDVHVRDCTF 271
+ D + D+CV + + +NI V + C G ++GSLGA+ + V D+ R+
Sbjct: 187 WVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGAD---TDVTDIVYRNVYT 243
Query: 272 KGTKNGARIKTWQGGSGHARRISFERIRLESSDNPIIIDQYYCGPNGDCKNQTSAVKVSD 331
+ IK+ GGSG + E + + ID Y+ + ++
Sbjct: 244 WSSNQMYMIKS-NGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTAVAGDGVQLNNITV 302
Query: 332 VSYIGFQGTSSTEEAVQLSCSESVGCTDIKINNIDITHSDSGKDTRASCINAHGELY 388
++ G + +T +++ CS++ CTD+ + +I I ++SG C +A+G Y
Sbjct: 303 KNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAI-WTESGSSELYLCRSAYGSGY 358
>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 = 82.8 bits (203), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 79/261 (30%), Positives = 123/261 (47%), Gaps = 22/261 (8%)
Query: 134 IDGKGASWWS----NKQNQRPTALSFGSCNNLVFRGLTHVDSPGNHISVYGCNDVSISNL 189
I+G G+ WW N +P + S N V GL V+SP SV G + +++ ++
Sbjct: 84 INGDGSRWWDGEGGNGGKTKPKFFAAHSLTNSVISGLKIVNSPVQVFSVAGSDYLTLKDI 143
Query: 190 KIIAPESSPN----TDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNIAVTGVICGPGH 245
I + N TD DI S+ V I T+ DDCVA+ + NI +G C GH
Sbjct: 144 TIDNSDGDDNGGHNTDAFDIGTSTYVTISGATVYNQDDCVAVNSG-ENIYFSGGYCSGGH 202
Query: 246 GISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRISFERIRLES-SD 304
G+SIGS+G + V++V D T + NG RIKT +G ++++ I L S +
Sbjct: 203 GLSIGSVGGRSDNT-VKNVTFVDSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAK 261
Query: 305 NPIIIDQYYCGPNGDCKNQ-TSAVKVSDVSYIGFQGT-SSTEEAVQLSCSESVGCTDIKI 362
I++ Q Y GD + T+ V ++D G+ S+ + +SC S C+D
Sbjct: 262 YGIVVQQNY----GDTSSTPTTGVPITDFVLDNVHGSVVSSGTNILISCG-SGSCSDWTW 316
Query: 363 NNIDITHSDSGKDTRASCINA 383
++ + SG T + C N
Sbjct: 317 TDVSV----SGGKTSSKCTNV 333
>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 = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 78/259 (30%), Positives = 118/259 (45%), Gaps = 32/259 (12%)
Query: 69 LLVPAGKTFLLNPVSFQGPCKSSSINVQIQGNIVAPHSSAWDGHDKKKWLLFSNVNGLTV 128
++VPAG T + + S V QG + W+G + FS N + +
Sbjct: 26 IVVPAGTTLDMTGLK-------SGTTVTFQGKTTFGYKE-WEG----PLISFSGTN-INI 72
Query: 129 NGNG--KIDGKGASWW----SNKQNQRPTALSFGSCNNLVFRGLTHVDSPGNHISV---- 178
NG ID +G+ WW SN +P S + +GL +++P S+
Sbjct: 73 NGASGHSIDCQGSRWWDSKGSNGGKTKPKFFYAHSLKSSNIKGLNVLNTPVQAFSINSAT 132
Query: 179 -YGCNDVSISNLKIIAPESSP--NTDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNIA 235
G DV I N A +S+ NTD D+ S+ V I + DDC+AI + T NI
Sbjct: 133 TLGVYDVIIDNS---AGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSGT-NIT 188
Query: 236 VTGVICGPGHGISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRISF 295
TG C GHG+SIGS+G + V+ V + + + NG RIKT G +G +++
Sbjct: 189 FTGGTCSGGHGLSIGSVGGR-SDNTVKTVTISNSKIVNSDNGVRIKTVSGATGSVSGVTY 247
Query: 296 ERIRLES-SDNPIIIDQYY 313
I L + + I+I+Q Y
Sbjct: 248 SGITLSNIAKYGIVIEQDY 266
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 67/229 (29%), Positives = 110/229 (48%), Gaps = 27/229 (11%)
Query: 134 IDGKGASWWSNK-----QNQRPTALSF--GSCNNLVFRGLTHVDSPGNHISVYGCNDVSI 186
IDG G ++W K NQ+P + N L + P + + G + ++I
Sbjct: 81 IDGNGQAYWDGKGSNSNSNQKPDHFIVVQKTTGNSKITNLNIQNWPVHCFDITGSSQLTI 140
Query: 187 S------------NLKIIAPESSPNTDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNI 234
S N K + ++ NTDG DI+ S +V + + + DDCVA+ T +NI
Sbjct: 141 SGLILDNRAGDKPNAKSGSLPAAHNTDGFDISSSDHVTLDNNHVYNQDDCVAV-TSGTNI 199
Query: 235 AVTGVICGPGHGISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRIS 294
V+ + C GHG+SIGS+G ++V+ V ++NG RIK+ G +G ++
Sbjct: 200 VVSNMYCSGGHGLSIGSVGGK-SDNVVDGVQFLSSQVVNSQNGCRIKSNSGATGTINNVT 258
Query: 295 FERIRLES-SDNPIIIDQYYC--GPNGDCKNQTSAVKVSDVSYIGFQGT 340
++ I L + S + + Q Y GP G T+ VK+S++ +I GT
Sbjct: 259 YQNIALTNISTYGVDVQQDYLNGGPTGK---PTNGVKISNIKFIKVTGT 304
>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 = 72.4 bits (176), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 89/373 (23%), Positives = 145/373 (38%), Gaps = 82/373 (21%)
Query: 32 SVSVIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSS 91
V+++ FGA GDG TD S++F +A + + SK L+VP G FL P+ + S
Sbjct: 27 EVNLLDFGARGDGRTDCSESFKRAIEEL--SKQGGGRLIVPEG-VFLTGPIHLK-----S 78
Query: 92 SINVQIQGNI------------VAPHSSAWDGHDKKKWLLFSNVNGLTVNGNGKIDGKG- 138
+I + ++G I V + ++ + + + + G+G +DG
Sbjct: 79 NIELHVKGTIKFIPDPERYLPVVLTRFEGIELYNYSPLVYALDCENVAITGSGVLDGSAD 138
Query: 139 -ASWWS--------------NKQNQ-------------------------RPTALSFGSC 158
WW N+Q RP+ + F C
Sbjct: 139 NEHWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRPSFVQFYRC 198
Query: 159 NNLVFRGLTHVDSPGNHISVYGCNDVSISNLKIIAPESSPNTDGIDITHSSNVQIRDCTI 218
N++ G+ ++SP I +V I N++I + + PN DGID + I C
Sbjct: 199 RNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISS--TGPNNDGIDPESCKYMLIEKCRF 256
Query: 219 ATGDDCVA-----------IGTDTSNIAVTG--VICGPGH-GISIGSLGANGGTSIVEDV 264
TGDD V IG + I V VI H G+ IGS + G V +V
Sbjct: 257 DTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVISQASHGGLVIGSEMSGG----VRNV 312
Query: 265 HVRDCTFKGTKNGARIKTWQGGSGHARRISF-ERIRLESSDNPIIIDQYYCGPNGDCKNQ 323
R+ + + R+KT G+ I F + + + S+ I I+ Y G+
Sbjct: 313 VARNNVYMNVERALRLKTNSRRGGYMENIFFIDNVAVNVSEEVIRINLRYDNEEGEYLPV 372
Query: 324 TSAVKVSDVSYIG 336
+V V ++ G
Sbjct: 373 VRSVFVKNLKATG 385
>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 = 72.0 bits (175), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 70/245 (28%), Positives = 114/245 (46%), Gaps = 16/245 (6%)
Query: 134 IDGKGASWWSNKQ---NQRPTALSFGSCNNLVFRGLTHVDSPGNHISVYGCNDVSISNLK 190
I+ GA WW K ++P ++ GL ++P SV ND++ +++
Sbjct: 107 INCDGARWWDGKGTSGKKKPKFFYAHGLDSSSITGLNIKNTPLMAFSVQ-ANDITFTDVT 165
Query: 191 IIAPESSP----NTDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNIAVTGVICGPGHG 246
I + NTD D+ +S V I + DDC+A+ + NI TG C GHG
Sbjct: 166 INNADGDTQGGHNTDAFDVGNSVGVNIIKPWVHNQDDCLAVNSG-ENIWFTGGTCIGGHG 224
Query: 247 ISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRISFERIRLES-SDN 305
+SIGS+G + ++V++V + T ++N RIKT G +G I++ I + SD
Sbjct: 225 LSIGSVG-DRSNNVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMSGISDY 283
Query: 306 PIIIDQYY--CGPNGDCKNQTSAVKVSDVSYIGFQGTSSTEEAVQLSCSESVGCTDIKIN 363
++I Q Y P G N + V S G + +TE + L C S C+D +
Sbjct: 284 GVVIQQDYEDGKPTGKPTNGVTIQDVKLESVTGSVDSGATE--IYLLCG-SGSCSDWTWD 340
Query: 364 NIDIT 368
++ +T
Sbjct: 341 DVKVT 345
>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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 78/305 (25%), Positives = 128/305 (41%), Gaps = 40/305 (13%)
Query: 69 LLVPAGKTFLLNPVSFQGPCKSSSINVQIQGNIVAPHSSAWDGHDKKKWLLFSNVNGLTV 128
VPAG T +LNP V + G+I ++ DG LF+ ++G +
Sbjct: 25 FTVPAGNTLVLNP--------DKGATVTMAGDITFAKTT-LDGP------LFT-IDGTGI 68
Query: 129 NGNGK---IDGKGASWW----SNKQNQRPTALSFGSCNNLVFRGLTHVDSPGNHISV--- 178
N G DG GA +W +N +P + ++ ++SP ISV
Sbjct: 69 NFVGADHIFDGNGALYWDGKGTNNGTHKPHPF-LKIKGSGTYKKFEVLNSPAQAISVGPT 127
Query: 179 ---YGCNDVSISNLKIIAPESSPNTDGIDITHSSNVQIRDCTIATGDDCVAIGTDTSNIA 235
+ +++ + NTDG D++ ++NV I++C + DDC+AI D +NI
Sbjct: 128 DAHLTLDGITVDDFAGDTKNLGHNTDGFDVS-ANNVTIQNCIVKNQDDCIAI-NDGNNIR 185
Query: 236 VTGVICGPGHGISIGSLGANGGTSIVEDVHVRDCTFKGTKNGARIKTWQ-GGSGHARRIS 294
C GHGISIGS+ V +V ++ T + G RIK + S ++
Sbjct: 186 FENNQCSGGHGISIGSIATG---KHVSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVT 242
Query: 295 FERIRLES-SDNPIIIDQYYCGPNGDCKNQTSAVKVSDVSYIGFQGTSSTEEAVQLSCSE 353
++ + + ++I Q Y P+ D N + SDV++ G T A E
Sbjct: 243 YDANTISGIAKYGVLISQSY--PD-DVGNPGTGAPFSDVNFTGGATTIKVNNAATRVTVE 299
Query: 354 SVGCT 358
C+
Sbjct: 300 CGNCS 304
>pdb|3LMW|A Chain A, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
pdb|3LMW|B Chain B, Crystal Structure Of Iota-Carrageenase Family Gh82 From A.
Fortis In Absence Of Chloride Ions
Length = 473
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 9/95 (9%)
Query: 35 VIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSSSIN 94
V FGA G+ +DDS A +A +I K N LL+P G F G S+++
Sbjct: 26 VDDFGANGNDTSDDSNALQRAINAIS-RKPNGGTLLIPNG------TYHFLGIQMKSNVH 78
Query: 95 VQIQGNIVAPHSSAWDGHDKKKWLLFSNVNGLTVN 129
++++ +++ W+G K L VN + N
Sbjct: 79 IRVESDVII--KPTWNGDGKNHRLFEVGVNNIVRN 111
>pdb|1H80|A Chain A, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1H80|B Chain B, 1,3-Alpha-1,4-Beta-D-Galactose-4-Sulfate-3,6-Anhydro-D-
Galactose-2-Sulfate 4 Galactohydrolase
pdb|1KTW|A Chain A, Iota-carrageenase Complexed To Iota-carrageenan Fragments
pdb|1KTW|B Chain B, Iota-carrageenase Complexed To Iota-carrageenan Fragments
Length = 464
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 44/95 (46%), Gaps = 9/95 (9%)
Query: 35 VIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSSSIN 94
V FGA G+ +DDS A +A +I K N LL+P G F G S+++
Sbjct: 25 VDDFGANGNDTSDDSNALQRAINAIS-RKPNGGTLLIPNG------TYHFLGIQMKSNVH 77
Query: 95 VQIQGNIVAPHSSAWDGHDKKKWLLFSNVNGLTVN 129
++++ +++ W+G K L VN + N
Sbjct: 78 IRVESDVII--KPTWNGDGKNHRLFEVGVNNIVRN 110
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 53/207 (25%), Positives = 82/207 (39%), Gaps = 39/207 (18%)
Query: 33 VSVIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSSS 92
VSV +GA GDG TDD +AF KA +S P+ VP G TF+++ + P +
Sbjct: 23 VSVKTYGAKGDGVTDDIRAFEKAIES-------GFPVYVPYG-TFMVSR-GIKLPSNTVL 73
Query: 93 INVQIQGNIVAPHSSAWDGHDKKKWLLFSN----------VNGLTVNGNGKIDGKGASWW 142
+ ++ S G L+++ ++ T++GN K +
Sbjct: 74 TGAGKRNAVIRFMDSVGRGES----LMYNENVTTGNENIFLSSFTLDGNNK---RLGQGI 126
Query: 143 SNKQNQRPTALSFGSCNNLVFRGLTHVDSPGNHISVY-GCNDVSISNLKIIAPESSPNT- 200
S R + LS +C+N+ R + VD + I + G D AP S N
Sbjct: 127 SGIGGSRESNLSIRACHNVYIRDIEAVDCTLHGIDITCGGLDYPYLGDGTTAPNPSENIW 186
Query: 201 -----------DGIDITHSSNVQIRDC 216
DGI HS + I +C
Sbjct: 187 IENCEATGFGDDGITTHHSQYINILNC 213
>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 = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 53/207 (25%), Positives = 82/207 (39%), Gaps = 39/207 (18%)
Query: 33 VSVIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPAGKTFLLNPVSFQGPCKSSS 92
VSV +GA GDG TDD +AF KA +S P+ VP G TF+++ + P +
Sbjct: 23 VSVKTYGAKGDGVTDDIRAFEKAIES-------GFPVYVPYG-TFMVSR-GIKLPSNTVL 73
Query: 93 INVQIQGNIVAPHSSAWDGHDKKKWLLFSN----------VNGLTVNGNGKIDGKGASWW 142
+ ++ S G L+++ ++ T++GN K +
Sbjct: 74 TGAGKRNAVIRFMDSVGRGES----LMYNENVTTGNENIFLSSFTLDGNNK---RLGQGI 126
Query: 143 SNKQNQRPTALSFGSCNNLVFRGLTHVDSPGNHISVY-GCNDVSISNLKIIAPESSPNT- 200
S R + LS +C+N+ R + VD + I + G D AP S N
Sbjct: 127 SGIGGSRESNLSIRACHNVYIRDIEAVDCTLHGIDITCGGLDYPYLGDGTTAPNPSENIW 186
Query: 201 -----------DGIDITHSSNVQIRDC 216
DGI HS + I +C
Sbjct: 187 IENCEATGFGDDGITTHHSQYINILNC 213
>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 = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 65/159 (40%), Gaps = 14/159 (8%)
Query: 148 QRPTALSFGSCNNLVFRGLTHVDSPGNHISVYGCNDVSISNLKIIAPESSPNTDGIDITH 207
+R + ++ N+ G T V +P H + N ++N I + N DGI+ +
Sbjct: 329 RRSSLMTLRGVENVYLAGFT-VRNPAFHGIMNLENHNVVANGLIHQTYDANNGDGIEFGN 387
Query: 208 SSNVQIRDCTIATGDDCVAIGTDTSNIA----------VTGVICGPGHGISIGSLGANGG 257
S NV + + TGDDC+ T A + GHG + G++ G
Sbjct: 388 SQNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAWLFNNYFRMGHGAIV--TGSHTG 445
Query: 258 TSIVEDVHVRDCTFKGTKNGARIKTWQGGSGHARRISFE 296
+ +ED+ + T G R K+ G AR ++F
Sbjct: 446 -AWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFR 483
>pdb|1TA3|B Chain B, Crystal Structure Of Xylanase (Gh10) In Complex With
Inhibitor (Xip)
Length = 303
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 35/89 (39%), Gaps = 13/89 (14%)
Query: 292 RISFERIRLESSDNPIIIDQYYCGPNGDCKNQTSAVKVSD-------VSYIGFQGT---- 340
RI+FE R D + I+ Y K Q A V + IG Q
Sbjct: 153 RIAFETARAADPDAKLYINDYNLDSASYAKTQAMASYVKKWLAEGVPIDGIGSQAHYSSS 212
Query: 341 --SSTEEAVQLSCSESVGCTDIKINNIDI 367
SSTE A LS + G +++ I +DI
Sbjct: 213 HWSSTEAAGALSSLANTGVSEVAITELDI 241
>pdb|2VBK|A Chain A, Native Tailspike Protein Of Bacteriophage Sf6
pdb|2VBM|A Chain A, Tailspike Protein Of Bacteriophage Sf6 Complexed With
Tetrasaccharide
Length = 514
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 32 SVSVIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPA 73
++S++ FG + DG TD+ QA A ++ S + L +PA
Sbjct: 51 AISILDFGVIDDGVTDNYQAIQNAIDAV-ASLPSGGELFIPA 91
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 32 SVSVIQFGAVGDGETDDSQAFLKAWKSICGSKSNAAPLLVPA 73
++S++ FG + DG TD+ QA A ++ S + L +PA
Sbjct: 51 AISILDFGVIDDGVTDNYQAIQNAIDAV-ASLPSGGELFIPA 91
>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 = 5.7, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 21/40 (52%), Gaps = 2/40 (5%)
Query: 26 FPSYASS--VSVIQFGAVGDGETDDSQAFLKAWKSICGSK 63
+ YA S VSV GA GDG TDD+QA + G K
Sbjct: 392 YTGYAPSDFVSVRSQGAKGDGHTDDTQAIKNVFAKYAGCK 431
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
0.315 0.132 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,764,468
Number of Sequences: 62578
Number of extensions: 562437
Number of successful extensions: 1101
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 1065
Number of HSP's gapped (non-prelim): 33
length of query: 400
length of database: 14,973,337
effective HSP length: 101
effective length of query: 299
effective length of database: 8,652,959
effective search space: 2587234741
effective search space used: 2587234741
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 52 (24.6 bits)