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= 021449
(312 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 110 bits (274), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 87/281 (30%), Positives = 135/281 (48%), Gaps = 53/281 (18%)
Query: 70 PRLRPAAFNLTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVPPGRWLTAPFNLT 129
P++ NL DFG GDG T +E+F+RA I +L K+GGG+L VP G +LT P +L
Sbjct: 21 PQIPDREVNLLDFGARGDGRTDCSESFKRA---IEELSKQGGGRLIVPEGVFLTGPIHLK 77
Query: 130 SHMTLFLADDAEILAIENEKYWPLMPPLPSYGYGREHHGPRFGSFIHGQNLKDVVITGHN 189
S++ L + + + + E+Y P++ L + G E + + ++ + ++V ITG +
Sbjct: 78 SNIELHVKGTIKFIP-DPERYLPVV--LTRF-EGIELYN--YSPLVYALDCENVAITG-S 130
Query: 190 GTINGQG--QAWW---------------------KKYRQKLLNNT-------------RG 213
G ++G + WW KK ++ T R
Sbjct: 131 GVLDGSADNEHWWPWKGKKDFGWKEGLPNQQEDVKKLKEMAERGTPVEERVFGKGHYLRP 190
Query: 214 PLVQIMWSSDILISNITLRDSPFWTLHPYDCKNVTIRNAFISKIQLF------DSCEDMV 267
VQ ++L+ + + +SP W +HP +NV IRN IS +SC+ M+
Sbjct: 191 SFVQFYRCRNVLVEGVKIINSPMWCIHPVLSENVIIRNIEISSTGPNNDGIDPESCKYML 250
Query: 268 IEDCYISVGDDAIAIKSGWDQYGIAYGRPSMNILIR-NLVV 307
IE C GDD++ IKSG D G G PS IL+R NLV+
Sbjct: 251 IEKCRFDTGDDSVVIKSGRDADGRRIGVPSEYILVRDNLVI 291
>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 = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 34/92 (36%), Positives = 49/92 (53%), Gaps = 8/92 (8%)
Query: 64 VASRPIP---RLRPAAFNLTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVPPGR 120
VAS+PI +P N+ DFG + DG TLNT+A Q+A+ + K G ++ +P G
Sbjct: 141 VASKPITAKTSAKPQIVNVRDFGAIDDGKTLNTKAIQQAIDSC-----KPGCRVEIPAGT 195
Query: 121 WLTAPFNLTSHMTLFLADDAEILAIENEKYWP 152
+ + L S MTL L A +L EN +P
Sbjct: 196 YKSGALWLKSDMTLNLQAGAILLGSENPDDYP 227
>pdb|1BHE|A Chain A, Polygalacturonase From Erwinia Carotovora Ssp. Carotovora
Length = 376
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 47/183 (25%), Positives = 81/183 (44%), Gaps = 23/183 (12%)
Query: 121 WLTAPFNLTSHMTLFLADDAEILAIENEKYWPLMPPLPSYGYGREHHGPRFGSFIHGQNL 180
+L+ P +L S ++L + + A+ N K + P S G + +G +FI +
Sbjct: 52 FLSGPLSLPSGVSLLIDKGVTLRAVNNAKSFENAPS--SCGV-VDKNGKGCDAFITAVST 108
Query: 181 KDVVITGHNGTINGQGQ--------AWWK---KYRQKLLNNTRGPLVQIMWSSDILISNI 229
+ I G GTI+GQG +WW+ + K L L+QI S + + N+
Sbjct: 109 TNSGIYGP-GTIDGQGGVKLQDKKVSWWELAADAKVKKLKQNTPRLIQINKSKNFTLYNV 167
Query: 230 TLRDSP-----FWTLHPYDCKNVTIRNAFISK-IQLFD--SCEDMVIEDCYISVGDDAIA 281
+L +SP F + TI+ ++ D S +++ I I+ GDD +A
Sbjct: 168 SLINSPNFHVVFSDGDGFTAWKTTIKTPSTARNTDGIDPMSSKNITIAYSNIATGDDNVA 227
Query: 282 IKS 284
IK+
Sbjct: 228 IKA 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 = 34.7 bits (78), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 76 AFNLTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVP 117
A ++ DFG + DGVT N +A Q A+ A++ L GG+L +P
Sbjct: 51 AISILDFGVIDDGVTDNYQAIQNAIDAVASL--PSGGELFIP 90
>pdb|2VBE|A Chain A, Tailspike Protein Of Bacteriophage Sf6
Length = 514
Score = 34.7 bits (78), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 76 AFNLTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVP 117
A ++ DFG + DGVT N +A Q A+ A++ L GG+L +P
Sbjct: 51 AISILDFGVIDDGVTDNYQAIQNAIDAVASL--PSGGELFIP 90
>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 = 34.3 bits (77), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 79 LTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVPPGRWLTAPFNLTSHMTLFLAD 138
+ DFG G+ + ++ A QRA+ AIS+ K GG L +P G + + S++ + +
Sbjct: 26 VDDFGANGNDTSDDSNALQRAINAISR--KPNGGTLLIPNGTYHFLGIQMKSNVHIRVES 83
Query: 139 DAEI 142
D I
Sbjct: 84 DVII 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 = 34.3 bits (77), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 79 LTDFGGVGDGVTLNTEAFQRAVYAISKLGKKGGGQLNVPPGRWLTAPFNLTSHMTLFLAD 138
+ DFG G+ + ++ A QRA+ AIS+ K GG L +P G + + S++ + +
Sbjct: 25 VDDFGANGNDTSDDSNALQRAINAISR--KPNGGTLLIPNGTYHFLGIQMKSNVHIRVES 82
Query: 139 DAEI 142
D I
Sbjct: 83 DVII 86
>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 = 31.6 bits (70), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 39/194 (20%), Positives = 71/194 (36%), Gaps = 49/194 (25%)
Query: 77 FNLTDFGGVGDGVTLNTEAFQR-----------------AVYAISKLGKKGGGQLNVPPG 119
+N+ DFG +GDGV+ + + Q Y +S G+ G G L + G
Sbjct: 3 YNVKDFGALGDGVSDDRASIQAAIDAAYAAGGGTVYLPAGEYRVSAAGEPGDGCLMLKDG 62
Query: 120 RWLTAPFNLTSHMTLFLADDAEILAIENEKYWPLMPPLPSYGYGREHHGPRFGSFIHGQN 179
+L + + L D +I + YG E FG
Sbjct: 63 VYLAGAGMGETVIKLIDGSDQKITG------------MVRSAYGEET--SNFG------- 101
Query: 180 LKDVVITGHNGTINGQGQAWWKKYRQKLLNNTRGPLVQIMWSSDILISNITLRDSPFWTL 239
++D+ + G+ +G+ W+ Y R D+ I + +R+ +
Sbjct: 102 MRDLTLDGNRDNTSGKVDGWFNGYIPGGDGADR----------DVTIERVEVREMSGYGF 151
Query: 240 HPYDCK-NVTIRNA 252
P++ N+TIR++
Sbjct: 152 DPHEQTINLTIRDS 165
>pdb|2POZ|A Chain A, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|B Chain B, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|C Chain C, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|D Chain D, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|E Chain E, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|F Chain F, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|G Chain G, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
pdb|2POZ|H Chain H, Crystal Structure Of A Putative Dehydratase From
Mesorhizobium Loti
Length = 392
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 7/56 (12%)
Query: 126 FNLTSHMTLFLADDAEILAIENEKYWPLMPPLPSYGYGREHHGPRFGSFIHGQNLK 181
F + H F ADD + +EN PP S GY +GP G+ + +N++
Sbjct: 328 FXIHEHYPAFKADDGYVEVLEN-------PPSISSGYFEXPNGPGLGAVLIKRNIE 376
>pdb|2VVN|A Chain A, Btgh84 In Complex With Nh-Butylthiazoline
pdb|2VVN|B Chain B, Btgh84 In Complex With Nh-Butylthiazoline
pdb|2VVS|A Chain A, Btgh84 Structure In Complex With Pugnac
pdb|2X0H|A Chain A, Btgh84 Michaelis Complex
pdb|2X0H|B Chain B, Btgh84 Michaelis Complex
pdb|4AIS|A Chain A, A Complex Structure Of Btgh84
pdb|4AIS|B Chain B, A Complex Structure Of Btgh84
Length = 737
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 318 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 346
>pdb|2WZI|A Chain A, Btgh84 D243n In Complex With 5f-Oxazoline
pdb|2WZI|B Chain B, Btgh84 D243n In Complex With 5f-Oxazoline
Length = 737
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 318 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 346
>pdb|2WZH|A Chain A, Btgh84 D242n In Complex With Meumb-Derived Oxazoline
pdb|4AIU|A Chain A, A Complex Structure Of Btgh84
Length = 737
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 318 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 346
>pdb|2J47|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With A Imidazole-Pugnac Hybrid Inhibitor
pdb|2W4X|A Chain A, Btgh84 In Complex With Stz
pdb|2W66|A Chain A, Btgh84 In Complex With Hq602
pdb|2W66|B Chain B, Btgh84 In Complex With Hq602
pdb|2W67|A Chain A, Btgh84 In Complex With Fma34
pdb|2W67|B Chain B, Btgh84 In Complex With Fma34
pdb|2WCA|A Chain A, Btgh84 In Complex With N-Butyl Pugnac
pdb|2XJ7|A Chain A, Btgh84 In Complex With 6-Acetamido-6-Deoxy-Castanospermine
pdb|2XJ7|B Chain B, Btgh84 In Complex With 6-Acetamido-6-Deoxy-Castanospermine
pdb|2XM1|A Chain A, Btgh84 In Complex With N-Acetyl Gluconolactam
pdb|2XM1|B Chain B, Btgh84 In Complex With N-Acetyl Gluconolactam
pdb|2XM2|A Chain A, Btgh84 In Complex With Lognac
pdb|2XM2|B Chain B, Btgh84 In Complex With Lognac
Length = 716
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 297 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 325
>pdb|2CHO|A Chain A, Bacteroides Thetaiotaomicron Hexosaminidase With O-
Glcnacase Activity
pdb|2CHO|B Chain B, Bacteroides Thetaiotaomicron Hexosaminidase With O-
Glcnacase Activity
Length = 716
Score = 28.5 bits (62), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 297 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 325
>pdb|2J4G|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With N-Butyl-Thiazoline Inhibitor
pdb|2J4G|B Chain B, Bacteroides Thetaiotaomicron Gh84 O-Glcnacase In Complex
With N-Butyl-Thiazoline Inhibitor
Length = 715
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 296 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 324
>pdb|2JIW|A Chain A, Bacteroides Thetaiotaomicron Gh84 O-glcnacase In Complex
With 2-acetylamino-2-deoxy-1-epivalienamine
pdb|2JIW|B Chain B, Bacteroides Thetaiotaomicron Gh84 O-glcnacase In Complex
With 2-acetylamino-2-deoxy-1-epivalienamine
Length = 716
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/30 (46%), Positives = 19/30 (63%), Gaps = 1/30 (3%)
Query: 208 LNNTRGPLVQIMWSSDILISNITLRDSPFW 237
L + P +QIMW+ D +IS+IT RD W
Sbjct: 297 LGDKLNPSIQIMWTGDRVISDIT-RDGISW 325
>pdb|3HN7|A Chain A, Crystal Structure Of A Murein Peptide Ligase Mpl
(Psyc_0032) From Psychrobacter Arcticus 273-4 At 1.65 A
Resolution
Length = 524
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 30/77 (38%), Gaps = 9/77 (11%)
Query: 223 DILISNITLRDSPFWTLHPYDCK--------NVTIRNAFISKIQLFDSCEDMVIEDCYIS 274
D L + TL D W P + N TI N I Q+ S +D++ C +
Sbjct: 434 DSLAQSATLADHTLW-YEPTGLEWGLKEVIDNATIANPSIGSQQVLSSVDDIIKHICTHA 492
Query: 275 VGDDAIAIKSGWDQYGI 291
DAI I S GI
Sbjct: 493 KAGDAIVIXSNGGFEGI 509
>pdb|3AQ3|A Chain A, Molecular Insights Into Plant Cell Proliferation
Disturbance By Agrobacterium Protein 6b
pdb|3AQ3|B Chain B, Molecular Insights Into Plant Cell Proliferation
Disturbance By Agrobacterium Protein 6b
pdb|3AQ3|C Chain C, Molecular Insights Into Plant Cell Proliferation
Disturbance By Agrobacterium Protein 6b
Length = 211
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 17/42 (40%)
Query: 161 GYGREHHGPRFGSFIHGQNLKDVVITGHNGTINGQGQAWWKK 202
G+ HHGP SF + I I GQG W+ +
Sbjct: 120 GFVNYHHGPSTNSFFLAILXSQLFIRIRTDVIRGQGYGWYAR 161
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
0.324 0.140 0.457
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,136,297
Number of Sequences: 62578
Number of extensions: 437881
Number of successful extensions: 977
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 964
Number of HSP's gapped (non-prelim): 20
length of query: 312
length of database: 14,973,337
effective HSP length: 99
effective length of query: 213
effective length of database: 8,778,115
effective search space: 1869738495
effective search space used: 1869738495
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 51 (24.3 bits)