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= 042447
(355 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1RMG|A Chain A, Rhamnogalacturonase A From Aspergillus Aculeatus
Length = 422
Score = 72.0 bits (175), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 88/357 (24%), Positives = 145/357 (40%), Gaps = 77/357 (21%)
Query: 33 SERGGKVLVNVDSFGAAGDGVSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKG 92
S +G N+ S+GA D +D A +AW AC + V+ +P+G + L + G
Sbjct: 13 STKGATKTCNILSYGAVADNSTDVGPAITSAW-AACKSGGLVY-IPSGNYALNTWVTLTG 70
Query: 93 PCADKLVIQIDGTIVAP--------AEPDNWDPKLARIWLDFSKLNGVLFQGSGVIDGSG 144
A IQ+DG I A D D +L FS + QG G + +
Sbjct: 71 GSATA--IQLDGIIYRTGTASGNMIAVTDTTDFEL------FSSTSKGAVQGFGYVYHAE 122
Query: 145 SKWWASSCKKNKSESVRVYQV-LVSAPE---------------------DSPNTDGIHIT 182
+ A + V+ + LV AP + DGI +
Sbjct: 123 GTYGARILRLTDVTHFSVHDIILVDAPAFHFTMDTCSDGEVYNMAIRGGNEGGLDGIDVW 182
Query: 183 ESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGPGHGISIGSLGKD----------- 231
S N+ + D ++ D+C+++ + ++ I ++ I+C G ++GSLG D
Sbjct: 183 GS-NIWVHDVEVTNKDECVTVKSPANNILVESIYCNWSGGCAMGSLGADTDVTDIVYRNV 241
Query: 232 -----NSM---------GIVTKVVLDTAYLRETANGLRIKTWQTS-------AVKISQIM 270
N M G V+ V+L+ A L I + +S V+++ I
Sbjct: 242 YTWSSNQMYMIKSNGGSGTVSNVLLENFIGHGNAYSLDIDGYWSSMTAVAGDGVQLNNIT 301
Query: 271 YRNISGTTKSSKA---MKFACSDTVPCSDIVLSNVNLEKKDGTVETY-CNSAQGIGY 323
+N GT + ++ CSDT PC+D+ L ++ + + G+ E Y C SA G GY
Sbjct: 302 VKNWKGTEANGATRPPIRVVCSDTAPCTDLTLEDIAIWTESGSSELYLCRSAYGSGY 358
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 80/281 (28%), Positives = 116/281 (41%), Gaps = 60/281 (21%)
Query: 77 VPAGRHYLVSATRFKGPCADKLVIQIDGTIVAPAEPDNWDPKLARIWLDFSKLNGVLFQG 136
VPAG +S AD I +GT + W L R K V
Sbjct: 28 VPAGETLDLS------DAADGSTITFEGTTSFGYKE--WKGPLIRFG---GKDLTVTMAD 76
Query: 137 SGVIDGSGSKWWAS---SCKKNKSESVRVYQVLVSA-----PEDSP-------------- 174
VIDG GS+WW S + K K + + ++ V S +++P
Sbjct: 77 GAVIDGDGSRWWDSKGTNGGKTKPKFMYIHDVEDSTFKGINIKNTPVQAISVQATNVHLN 136
Query: 175 ---------------NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGP 219
NTDG I+EST V + + DDCI+I +G S I C
Sbjct: 137 DFTIDNSDGDDNGGHNTDGFDISESTGVYISGATVKNQDDCIAINSGES-ISFTGGTCSG 195
Query: 220 GHGISIGSLG--KDNSMGIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRNI--S 275
GHG+SIGS+G DN+ V V + + + +ANG+RIKT +S+I Y NI S
Sbjct: 196 GHGLSIGSVGGRDDNT---VKNVTISDSTVSNSANGVRIKTIYKETGDVSEITYSNIQLS 252
Query: 276 GTTKS----SKAMKFACSDTVPCSDIVLSNVNLEKKDGTVE 312
G T + + P + I +++V ++ GT+E
Sbjct: 253 GITDYGIVIEQDYENGSPTGTPSTGIPITDVTVDGVTGTLE 293
>pdb|1HG8|A Chain A, Endopolygalacturonase From The Phytopathogenic Fungus
Fusarium Moniliforme
Length = 349
Score = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 44/146 (30%), Positives = 78/146 (53%), Gaps = 10/146 (6%)
Query: 175 NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGPGHGISIGSLGKDNSM 234
NTDG I+ S +V L + + DDC+++ +G++ I + ++C GHG+SIGS+G S
Sbjct: 165 NTDGFDISSSDHVTLDNNHVYNQDDCVAVTSGTN-IVVSNMYCSGGHGLSIGSVGGK-SD 222
Query: 235 GIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRNISGTTKSSKAMKFACSDTV-- 292
+V V ++ + + NG RIK+ + I+ + Y+NI+ T S+ + D +
Sbjct: 223 NVVDGVQFLSSQVVNSQNGCRIKSNSGATGTINNVTYQNIALTNISTYGVDVQ-QDYLNG 281
Query: 293 -----PCSDIVLSNVNLEKKDGTVET 313
P + + +SN+ K GTV +
Sbjct: 282 GPTGKPTNGVKISNIKFIKVTGTVAS 307
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 60/117 (51%), Gaps = 10/117 (8%)
Query: 163 YQVLVSAPEDSPNTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFC----- 217
++ + P + NTDGI S N+ + I TGDD ++I + + I
Sbjct: 188 WKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKGRAETRNISILHNDF 247
Query: 218 GPGHGISIGSLGKDNSMGIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRNI 274
G GHG+SIGS +MG V V +D + T NGLRIK+ +++A ++ + Y N+
Sbjct: 248 GTGHGMSIGS----ETMG-VYNVTVDDLKMNGTTNGLRIKSDKSAAGVVNGVRYSNV 299
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 47/140 (33%), Positives = 71/140 (50%), Gaps = 15/140 (10%)
Query: 175 NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGPGHGISIGSLG--KDN 232
NTD I ST V + + DDC++ VN I +C GHG+SIGS+G DN
Sbjct: 157 NTDAFDIGTSTYVTISGATVYNQDDCVA-VNSGENIYFSGGYCSGGHGLSIGSVGGRSDN 215
Query: 233 SMGIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRNISGTT--KSSKAMKFACSD 290
++ VT V + + + NG+RIKT + +S + Y++I+ T+ K ++ D
Sbjct: 216 TVKNVTFV---DSTIINSDNGVRIKTNIDTTGSVSDVTYKDITLTSIAKYGIVVQQNYGD 272
Query: 291 T-------VPCSDIVLSNVN 303
T VP +D VL NV+
Sbjct: 273 TSSTPTTGVPITDFVLDNVH 292
>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 = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 44/135 (32%), Positives = 71/135 (52%), Gaps = 10/135 (7%)
Query: 175 NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGPGHGISIGSLGKDNSM 234
NTDG ++ + NV +Q+C + DDCI+I +G++ I+ + C GHGISIGS+
Sbjct: 151 NTDGFDVS-ANNVTIQNCIVKNQDDCIAINDGNN-IRFENNQCSGGHGISIGSIATGKH- 207
Query: 235 GIVTKVVLDTAYLRETANGLRIKTWQT-SAVKISQIMY--RNISGTTKSSKAMKFACSDT 291
V+ VV+ + + G+RIK +T ++ +S + Y ISG K + + D
Sbjct: 208 --VSNVVIKGNTVTRSMYGVRIKAQRTATSASVSGVTYDANTISGIAKYGVLISQSYPDD 265
Query: 292 V--PCSDIVLSNVNL 304
V P + S+VN
Sbjct: 266 VGNPGTGAPFSDVNF 280
>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 = 54.7 bits (130), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 40/127 (31%), Positives = 67/127 (52%), Gaps = 10/127 (7%)
Query: 155 NKSESVRVYQVLV-SAPEDSP---NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAI 210
N + ++ VY V++ ++ DS NTD + ST V + + DDC++I +G++ I
Sbjct: 129 NSATTLGVYDVIIDNSAGDSAGGHNTDAFDVGSSTGVYISGANVKNQDDCLAINSGTN-I 187
Query: 211 KMKRIFCGPGHGISIGSLG--KDNSMGIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQ 268
C GHG+SIGS+G DN+ V V + + + + NG+RIKT + +S
Sbjct: 188 TFTGGTCSGGHGLSIGSVGGRSDNT---VKTVTISNSKIVNSDNGVRIKTVSGATGSVSG 244
Query: 269 IMYRNIS 275
+ Y I+
Sbjct: 245 VTYSGIT 251
>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 = 51.2 bits (121), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 43/145 (29%), Positives = 70/145 (48%), Gaps = 8/145 (5%)
Query: 175 NTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRIFCGPGHGISIGSLGKDNSM 234
NTD + S V + + DDC++ VN I C GHG+SIGS+G D S
Sbjct: 178 NTDAFDVGNSVGVNIIKPWVHNQDDCLA-VNSGENIWFTGGTCIGGHGLSIGSVG-DRSN 235
Query: 235 GIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRNI--SGTTKSSKAMKFACSD-- 290
+V V ++ + + + N +RIKT + +S+I Y NI SG + ++ D
Sbjct: 236 NVVKNVTIEHSTVSNSENAVRIKTISGATGSVSEITYSNIVMSGISDYGVVIQQDYEDGK 295
Query: 291 --TVPCSDIVLSNVNLEKKDGTVET 313
P + + + +V LE G+V++
Sbjct: 296 PTGKPTNGVTIQDVKLESVTGSVDS 320
>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 = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 54/128 (42%), Gaps = 18/128 (14%)
Query: 41 VNVDSFGAAGDGVSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKGPCADKLVI 100
VN+ FGA GDG +D +++F A +VP G +L K + +
Sbjct: 28 VNLLDFGARGDGRTDCSESFKRAIEELSKQGGGRLIVPEG-VFLTGPIHLK----SNIEL 82
Query: 101 QIDGTIVAPAEPDNWDP-KLARI----WLDFSKL------NGVLFQGSGVIDGSG--SKW 147
+ GTI +P+ + P L R ++S L V GSGV+DGS W
Sbjct: 83 HVKGTIKFIPDPERYLPVVLTRFEGIELYNYSPLVYALDCENVAITGSGVLDGSADNEHW 142
Query: 148 WASSCKKN 155
W KK+
Sbjct: 143 WPWKGKKD 150
>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 = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 50/220 (22%), Positives = 88/220 (40%), Gaps = 34/220 (15%)
Query: 166 LVSAPEDSPNTDGIHITESTNVVLQDCKIGTGDDCISIVNGSSAIKMKRI---------- 215
L+ D+ N DGI S NV++ + TGDDCI+ G+ ++
Sbjct: 370 LIHQTYDANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKGAWLFNN 429
Query: 216 FCGPGHG-ISIGSLGKDNSMGIVTKVVLDTAYLRETANGLRIKTWQTSAVKISQIMYRN- 273
+ GHG I GS ++ + ++ + + T GLR K+ T + +RN
Sbjct: 430 YFRMGHGAIVTGS----HTGAWIEDILAENNVMYLTDIGLRAKSTSTIGGGARNVTFRNN 485
Query: 274 -ISGTTKSSKAMKFACSDT----------VPCS--DIVLSNVNLEK---KDGTVETYCNS 317
+ K M +D+ +P D L NV ++ K+ ++E ++
Sbjct: 486 AMRDLAKQVMVMTLDYADSNANIDYPPAKIPAQFYDFTLKNVTVDNSTGKNPSIEIKGDT 545
Query: 318 AQGIGYGIVHPSADCLTSNDKDA--KLAEPTRNEIVHTEL 355
A + +VH + L + A L + N++ TEL
Sbjct: 546 ANKAWHRLVHVNNVQLNNVTPTAISDLRDSEFNKVTFTEL 585
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 64/159 (40%), Gaps = 27/159 (16%)
Query: 40 LVNVDSFGAAGDGVSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKGPCADKLV 99
+VNV FGA DG + +T+A A ++ C P +PAG Y A K L
Sbjct: 156 IVNVRDFGAIDDGKTLNTKAIQQAIDS-CK-PGCRVEIPAGT-YKSGALWLKSDMT--LN 210
Query: 100 IQIDGTIVAPAEPDNWDPKLARIW--------------LDFSK-----LNGVLFQGSGVI 140
+Q ++ PD++ P R++ +D + + GSGVI
Sbjct: 211 LQAGAILLGSENPDDY-PAGYRLYPYSTIERPASLINAIDPNNSKPGTFRNIRITGSGVI 269
Query: 141 DGSGSKWWASSCKKNKSESVRVYQVLVSAPEDSPNTDGI 179
DG+G W + + E R V++ + DGI
Sbjct: 270 DGNG--WLRAKTAEITDELGRSLPQYVASKNSKVHEDGI 306
>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 = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 27/69 (39%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 42 NVDSFGAAGDGVSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKGPCADKLVIQ 101
NV FGA GDGVSDD + A + A + +PAG Y VSA G D ++
Sbjct: 4 NVKDFGALGDGVSDDRASIQAAIDAAYAAGGGTVYLPAGE-YRVSAA---GEPGDGCLML 59
Query: 102 IDGTIVAPA 110
DG +A A
Sbjct: 60 KDGVYLAGA 68
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 41 VNVDSFGAAGDGVSDDTQAFLNAWNTA--CSTPKSVFLVPAG 80
V+V ++GA GDGV+DD +AF A + P F+V G
Sbjct: 23 VSVKTYGAKGDGVTDDIRAFEKAIESGFPVYVPYGTFMVSRG 64
>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 = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 31/64 (48%), Gaps = 3/64 (4%)
Query: 41 VNVDSFGAAGDGVSDDTQAFLNAWNTA--CSTPKSVFLVPAGRHYLVSATRFKGPCADKL 98
V+V ++GA GDGV+DD +AF A + P F+V G L S T G
Sbjct: 23 VSVKTYGAKGDGVTDDIRAFEKAIESGFPVYVPYGTFMVSRGIK-LPSNTVLTGAGKRNA 81
Query: 99 VIQI 102
VI+
Sbjct: 82 VIRF 85
>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 = 32.3 bits (72), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 43 VDSFGAAGDGVSDDTQAFLNAWNTACSTPK-SVFLVPAGRHYLV 85
VD FGA G+ SDD+ A A N P L+P G ++ +
Sbjct: 26 VDDFGANGNDTSDDSNALQRAINAISRKPNGGTLLIPNGTYHFL 69
>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 = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 43 VDSFGAAGDGVSDDTQAFLNAWNTACSTPK-SVFLVPAGRHYLV 85
VD FGA G+ SDD+ A A N P L+P G ++ +
Sbjct: 25 VDDFGANGNDTSDDSNALQRAINAISRKPNGGTLLIPNGTYHFL 68
>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 = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 48/201 (23%), Positives = 79/201 (39%), Gaps = 24/201 (11%)
Query: 36 GGKVLVNVDSFGAAGDGVSDDT---QAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKG 92
G V NV ++GA GDG +DDT QA +NA S PA ++ +
Sbjct: 45 GYPVFRNVKNYGAKGDGNTDDTAAIQAAINAGGRCGQGCDSTTTQPALVYFPPGTYKVSS 104
Query: 93 PCADKLVIQIDGTIVAPAEPDNWDPKLARIWLDFSKLNGVLFQGSGVIDGSGSKWWASSC 152
P Q+ G D K L +G+ + G++++ +
Sbjct: 105 PLVVLYQTQLIG-----------DAKNLPTLLAAPNFSGIALIDADPYLAGGAQYYVN-- 151
Query: 153 KKNKSESVRVYQVLVSAPEDSPNTDGIH--ITEST---NVVLQ-DCKIGTGDDCISIVNG 206
+ N SVR + ++ + S + GIH ++++T N+V Q G I + NG
Sbjct: 152 QNNFFRSVRNF--VIDLRQVSGSATGIHWQVSQATSLINIVFQMSTAAGNQHQGIFMENG 209
Query: 207 SSAIKMKRIFCGPGHGISIGS 227
S +F G G + G+
Sbjct: 210 SGGFLGDLVFNGGNIGATFGN 230
>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 = 3.2, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 38 KVLVNVDSFGAAGDGVSDDTQAFLNAWNTACSTPK-SVFLVPAGRH---YLVSAT 88
K +++ FG DGV+D+ QA NA + S P +PA Y+V +T
Sbjct: 49 KEAISILDFGVIDDGVTDNYQAIQNAIDAVASLPSGGELFIPASNQAVGYIVGST 103
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/55 (32%), Positives = 27/55 (49%), Gaps = 4/55 (7%)
Query: 38 KVLVNVDSFGAAGDGVSDDTQAFLNAWNTACSTPK-SVFLVPAGRH---YLVSAT 88
K +++ FG DGV+D+ QA NA + S P +PA Y+V +T
Sbjct: 49 KEAISILDFGVIDDGVTDNYQAIQNAIDAVASLPSGGELFIPASNQAVGYIVGST 103
>pdb|3CXE|A Chain A, Structure Of The Gm-Csf Receptor Complex
Length = 414
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 53 VSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKGPCADKLVIQIDGTIVAPAEP 112
+S D FL W+ A +P+S +L P + V R + D ++ + T A P
Sbjct: 117 ISTDQDHFLLTWSVALGSPQSHWLSPGDLEFEVVYKRLQDSWEDAAIL-LSNTSQATLGP 175
Query: 113 DNWDPKLARIWLDFSKLNGVLFQGSGVIDGSGSKWWASSC 152
++ P + +++ L GS + G SKW C
Sbjct: 176 EHLMPSSTYV----ARVRTRLAPGSR-LSGRPSKWSPEVC 210
>pdb|1GH7|A Chain A, Crystal Structure Of The Complete Extracellular Domain Of
The Beta- Common Receptor Of Il-3, Il-5, And Gm-Csf
pdb|1GH7|B Chain B, Crystal Structure Of The Complete Extracellular Domain Of
The Beta- Common Receptor Of Il-3, Il-5, And Gm-Csf
pdb|2GYS|A Chain A, 2.7 A Structure Of The Extracellular Domains Of The Human
Beta Common Receptor Involved In Il-3, Il-5, And Gm-Csf
Signalling
pdb|2GYS|B Chain B, 2.7 A Structure Of The Extracellular Domains Of The Human
Beta Common Receptor Involved In Il-3, Il-5, And Gm-Csf
Signalling
Length = 419
Score = 28.9 bits (63), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 53 VSDDTQAFLNAWNTACSTPKSVFLVPAGRHYLVSATRFKGPCADKLVIQIDGTIVAPAEP 112
+S D FL W+ A +P+S +L P + V R + D ++ + T A P
Sbjct: 117 ISTDQDHFLLTWSVALGSPQSHWLSPGDLEFEVVYKRLQDSWEDAAIL-LSNTSQATLGP 175
Query: 113 DNWDPKLARIWLDFSKLNGVLFQGSGVIDGSGSKWWASSC 152
++ P + +++ L GS + G SKW C
Sbjct: 176 EHLMPSSTYV----ARVRTRLAPGSR-LSGRPSKWSPEVC 210
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 0.131 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,512,910
Number of Sequences: 62578
Number of extensions: 436372
Number of successful extensions: 870
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 15
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 828
Number of HSP's gapped (non-prelim): 30
length of query: 355
length of database: 14,973,337
effective HSP length: 100
effective length of query: 255
effective length of database: 8,715,537
effective search space: 2222461935
effective search space used: 2222461935
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: 52 (24.6 bits)