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= 038762
(268 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 35/72 (48%), Positives = 43/72 (59%), Gaps = 3/72 (4%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTATIRLKSHVTLNIHEDA 76
V DFGA DG +T AIQ AID+C PG C+V P G Y + + LKS +TLN+ A
Sbjct: 159 VRDFGAIDDGKTLNTKAIQQAIDSCKPG---CRVEIPAGTYKSGALWLKSDMTLNLQAGA 215
Query: 77 TLLGGPRIEDYP 88
LLG +DYP
Sbjct: 216 ILLGSENPDDYP 227
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 61/146 (41%), Gaps = 11/146 (7%)
Query: 121 VVTKNEIKNVMVSWNHTGACSGDECRPRLVGFLGCRNVNVWNVRLREPAYWCLHIVRCDN 180
++ KN+++ + G + R L+ G NV + +R PA+ + + N
Sbjct: 306 ILAKNQVEKAVSDGMDLKNAYG-QRRSSLMTLRGVENVYLAGFTVRNPAFHGIMNLENHN 364
Query: 181 TFIRDMSIYGDFNTPNNDGIDIEDSNNTVITRVQIDTGDDAICPKTYTG-------PLYN 233
+ I+ ++ N DGI+ +S N ++ DTGDD I TG P+
Sbjct: 365 VVANGL-IHQTYDANNGDGIEFGNSQNVMVFNNFFDTGDDCINFAAGTGEKAQEQEPMKG 423
Query: 234 LTATDSWIRTKSSAIKLGS--ASWFD 257
+++ R AI GS +W +
Sbjct: 424 AWLFNNYFRMGHGAIVTGSHTGAWIE 449
>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 = 65.1 bits (157), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 34/86 (39%), Positives = 46/86 (53%), Gaps = 2/86 (2%)
Query: 141 SGDECRPRLVGFLGCRNVNVWNVRLREPAYWCLHIVRCDNTFIRDMSIYGDFNTPNNDGI 200
G RP V F CRNV V V++ WC+H V +N IR++ I PNNDGI
Sbjct: 184 KGHYLRPSFVQFYRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISS--TGPNNDGI 241
Query: 201 DIEDSNNTVITRVQIDTGDDAICPKT 226
D E +I + + DTGDD++ K+
Sbjct: 242 DPESCKYMLIEKCRFDTGDDSVVIKS 267
Score = 33.9 bits (76), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 32/56 (57%), Gaps = 1/56 (1%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTATIRLKSHVTLNI 72
++DFGA+GDG + + + AI+ ++ P G +LT I LKS++ L++
Sbjct: 30 LLDFGARGDGRTDCSESFKRAIEELSK-QGGGRLIVPEGVFLTGPIHLKSNIELHV 84
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 29/80 (36%), Positives = 41/80 (51%), Gaps = 11/80 (13%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDA---CPPG-----NKPCQVRFPPGEYLTAT---IRLK 65
V ++GAKGDG DTAAIQ+AI+A C G +P V FPPG Y ++ + +
Sbjct: 52 VKNYGAKGDGNTDDTAAIQAAINAGGRCGQGCDSTTTQPALVYFPPGTYKVSSPLVVLYQ 111
Query: 66 SHVTLNIHEDATLLGGPRIE 85
+ + + TLL P
Sbjct: 112 TQLIGDAKNLPTLLAAPNFS 131
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 53/214 (24%), Positives = 79/214 (36%), Gaps = 21/214 (9%)
Query: 31 TAAIQSAIDACPPGNKPCQVRFPPGE---YLTATIRLKSHVTLNIHEDATLLGGPRIEDY 87
T+ IQ A++ C G VR G +L+ + L S V+L I + TL + +
Sbjct: 26 TSTIQKALNNCDQGK---AVRLSAGSTSVFLSGPLSLPSGVSLLIDKGVTLRAVNNAKSF 82
Query: 88 PEESSRWYVVLAENAXXXXXXXXXXXXXQAMKFVVTKN-----EIKNVMVSWNHTGACSG 142
S VV + T + ++++ VSW A +
Sbjct: 83 ENAPSSCGVVDKNGKGCDAFITAVSTTNSGIYGPGTIDGQGGVKLQDKKVSWWELAADAK 142
Query: 143 ----DECRPRLVGFLGCRNVNVWNVRL-REPAYWCLHIVRCDNTFIR--DMSIYGDFNTP 195
+ PRL+ +N ++NV L P + H+V D +I
Sbjct: 143 VKKLKQNTPRLIQINKSKNFTLYNVSLINSPNF---HVVFSDGDGFTAWKTTIKTPSTAR 199
Query: 196 NNDGIDIEDSNNTVITRVQIDTGDDAICPKTYTG 229
N DGID S N I I TGDD + K Y G
Sbjct: 200 NTDGIDPMSSKNITIAYSNIATGDDNVAIKAYKG 233
>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 = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTATIRLKSHVTLNIHEDA 76
V DFGA G+ D+ A+Q AI+A + P G Y I++KS+V + + D
Sbjct: 26 VDDFGANGNDTSDDSNALQRAINAISRKPNGGTLLIPNGTYHFLGIQMKSNVHIRVESDV 85
Query: 77 TL 78
+
Sbjct: 86 II 87
>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 = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 31/62 (50%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTATIRLKSHVTLNIHEDA 76
V DFGA G+ D+ A+Q AI+A + P G Y I++KS+V + + D
Sbjct: 25 VDDFGANGNDTSDDSNALQRAINAISRKPNGGTLLIPNGTYHFLGIQMKSNVHIRVESDV 84
Query: 77 TL 78
+
Sbjct: 85 II 86
>pdb|3GVK|A Chain A, Crystal Structure Of Endo-Neuraminidase Nf Mutant
pdb|3GVK|B Chain B, Crystal Structure Of Endo-Neuraminidase Nf Mutant
pdb|3GVK|C Chain C, Crystal Structure Of Endo-Neuraminidase Nf Mutant
Length = 670
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 22 AKGDGIHYDTAAIQSAIDACPPGNK 46
AKGDG+ DTAA+ SA++ P G K
Sbjct: 6 AKGDGVTDDTAALTSALNDTPVGQK 30
>pdb|1V0E|A Chain A, Endosialidase Of Bacteriophage K1f
pdb|1V0E|B Chain B, Endosialidase Of Bacteriophage K1f
pdb|1V0E|C Chain C, Endosialidase Of Bacteriophage K1f
pdb|1V0E|D Chain D, Endosialidase Of Bacteriophage K1f
pdb|1V0E|E Chain E, Endosialidase Of Bacteriophage K1f
pdb|1V0E|F Chain F, Endosialidase Of Bacteriophage K1f
pdb|1V0F|A Chain A, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
pdb|1V0F|B Chain B, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
pdb|1V0F|C Chain C, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
pdb|1V0F|D Chain D, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
pdb|1V0F|E Chain E, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
pdb|1V0F|F Chain F, Endosialidase Of Bacteriophage K1f In Complex With
Oligomeric Alpha-2,8-Sialic Acid
Length = 666
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 22 AKGDGIHYDTAAIQSAIDACPPGNK 46
AKGDG+ DTAA+ SA++ P G K
Sbjct: 2 AKGDGVTDDTAALTSALNDTPVGQK 26
>pdb|3GVJ|A Chain A, Crystal Structure Of An Endo-Neuraminidasenf Mutant
Length = 670
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 22 AKGDGIHYDTAAIQSAIDACPPGNK 46
AKGDG+ DTAA+ SA++ P G K
Sbjct: 6 AKGDGVTDDTAALTSALNDTPVGQK 30
>pdb|3JU4|A Chain A, Crystal Structure Analysis Of Endosialidasenf At 0.98 A
Resolution
pdb|3GVL|A Chain A, Crystal Structure Of Endo-Neuraminidasenf
Length = 670
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 22 AKGDGIHYDTAAIQSAIDACPPGNK 46
AKGDG+ DTAA+ SA++ P G K
Sbjct: 6 AKGDGVTDDTAALTSALNDTPVGQK 30
>pdb|3SUC|A Chain A, Crystal Structure Of The Pre-Mature Bacteriophage Phi29
Gene Product 12
Length = 772
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTA-TIRLKSHVTL 70
V +GAKGDG+ D A + AI++ P V P G ++ + I+L S+ L
Sbjct: 25 VKTYGAKGDGVTDDIRAFEKAIESGFP------VYVPYGTFMVSRGIKLPSNTVL 73
>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 = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 19/55 (34%), Positives = 29/55 (52%), Gaps = 7/55 (12%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEYLTA-TIRLKSHVTL 70
V +GAKGDG+ D A + AI++ P V P G ++ + I+L S+ L
Sbjct: 25 VKTYGAKGDGVTDDIRAFEKAIESGFP------VYVPYGTFMVSRGIKLPSNTVL 73
>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 = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/41 (51%), Positives = 24/41 (58%), Gaps = 1/41 (2%)
Query: 17 VIDFGAKGDGIHYDTAAIQSAIDACPPGNKPCQVRFPPGEY 57
V DFGA GDG+ D A+IQ+AIDA V P GEY
Sbjct: 5 VKDFGALGDGVSDDRASIQAAIDAAYA-AGGGTVYLPAGEY 44
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 0.137 0.438
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,910,270
Number of Sequences: 62578
Number of extensions: 317538
Number of successful extensions: 587
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 568
Number of HSP's gapped (non-prelim): 18
length of query: 268
length of database: 14,973,337
effective HSP length: 97
effective length of query: 171
effective length of database: 8,903,271
effective search space: 1522459341
effective search space used: 1522459341
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: 50 (23.9 bits)