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= 039631
(369 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 142 bits (358), Expect = 3e-34, Method: Compositional matrix adjust.
Identities = 94/306 (30%), Positives = 154/306 (50%), Gaps = 25/306 (8%)
Query: 74 VNQDGSGEFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKPFITFYGSPDAMPN 133
V QDG+G+++T+ +A+ + P + R ++ + G Y E +++ +K + G D M
Sbjct: 7 VAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVG--DGMYA 64
Query: 134 VTFGGTAKEYG---TVDSATLIVESDYFMAVNIIIANSS-PRPDGKREGAQAVALRISGT 189
T G+ T SATL F+ +I I N++ P D QAVALR+
Sbjct: 65 TTITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKD------QAVALRVGAD 118
Query: 190 KAAFYNCKIIGFQDTLCDDRGNHFFKDCHIQGTVDFIFGSGKSLYLSTEL--RAMGDTGL 247
+ C+I +QDTL F++D ++ GTVDFIFG+ ++ +L R G
Sbjct: 119 MSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKYQQ 178
Query: 248 TVITAHARESESEDNGFAFVHCTIEGSGN--------GTYLGRAWKNSPRVVYAYTTMGN 299
++TA R ++ G + C I S + TYLGR WK R V + +G
Sbjct: 179 NMVTAQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGG 238
Query: 300 VVNRAGWSDNFRPERRQTVFYGEYKCSGPGASPAERVEY--TKQLSD-AEARPFLVLDYV 356
++N AGW++ +T++YGE+ +GPGA ++RV++ ++D A+A PF V +
Sbjct: 239 LINPAGWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLI 298
Query: 357 QGNQWI 362
QG W+
Sbjct: 299 QGGSWL 304
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 140 bits (353), Expect = 1e-33, Method: Compositional matrix adjust.
Identities = 98/313 (31%), Positives = 152/313 (48%), Gaps = 35/313 (11%)
Query: 72 IKVNQDGSGEFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKPFITFYGSP--- 128
+ V DGSG++KT+++A+ + P+ + R ++ I AG Y E + + + K I F G
Sbjct: 9 VVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTS 68
Query: 129 ---DAMPNVTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANSSPRPDGKREGAQAVALR 185
A NV G T T +SAT+ F+A +I N++ QAVALR
Sbjct: 69 TIITASKNVQDGST-----TFNSATVAAVGAGFLARDITFQNTAGAAK-----HQAVALR 118
Query: 186 ISGTKAAFYNCKIIGFQDTLCDDRGNHFFKDCHIQGTVDFIFGSGKSLYLSTELRAM--G 243
+ +AFY C I+ +QD+L FF +C I GTVDFIFG+ + ++ A G
Sbjct: 119 VGSDLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPG 178
Query: 244 DTGLTVITAHARESESEDNGFAFVHCTIEGSGN--------GTYLGRAWKNSPRVVYAYT 295
++TA R +++ G I + + TYLGR WK R V +
Sbjct: 179 SGQKNMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQS 238
Query: 296 TMGNVVNRAG---WSDNFRPERRQTVFYGEYKCSGPGASPAERVEYTK---QLSDAEARP 349
++ NV+N AG W NF + T++YGEY+ +G GA+ + RV + S EA+
Sbjct: 239 SITNVINPAGWFPWDGNFALD---TLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQG 295
Query: 350 FLVLDYVQGNQWI 362
F ++ G W+
Sbjct: 296 FTPGSFIAGGSWL 308
>pdb|1QJV|A Chain A, Pectin Methylesterase Pema From Erwinia Chrysanthemi
pdb|1QJV|B Chain B, Pectin Methylesterase Pema From Erwinia Chrysanthemi
Length = 342
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 67/185 (36%), Positives = 92/185 (49%), Gaps = 18/185 (9%)
Query: 71 VIKVNQDGSGEFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKPFI-----TFY 125
V K + DG FKTI DAI S P G+T VIL I G Y E++ I R+ +
Sbjct: 8 VSKSSSDGK-TFKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNNLHLKGESRNGA 65
Query: 126 GSPDAMPNVTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANS---------SPRPDGKR 176
A T ++GT S+T+ + + F A ++ I N S K
Sbjct: 66 VIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKI 125
Query: 177 EGAQAVALRI--SGTKAAFYNCKIIGFQDTLCDDRGNHFFKDCHIQGTVDFIFGSGKSLY 234
+ QAVAL + SG +A F + ++G+QDTL G FF DC I GTVDFIFG G +L+
Sbjct: 126 KDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALF 185
Query: 235 LSTEL 239
+ +L
Sbjct: 186 NNCDL 190
>pdb|2NTB|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTB|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide V
pdb|2NTP|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTP|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vi
pdb|2NTQ|A Chain A, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
pdb|2NTQ|B Chain B, Crystal Structure Of Pectin Methylesterase In Complex With
Hexasaccharide Vii
Length = 342
Score = 87.4 bits (215), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 67/185 (36%), Positives = 92/185 (49%), Gaps = 18/185 (9%)
Query: 71 VIKVNQDGSGEFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKPFI-----TFY 125
V K + DG FKTI DAI S P G+T VIL I G Y E++ I R+ +
Sbjct: 8 VSKSSSDGK-TFKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNNLHLKGESRNGA 65
Query: 126 GSPDAMPNVTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANS---------SPRPDGKR 176
A T ++GT S+T+ + + F A ++ I N S K
Sbjct: 66 VIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKI 125
Query: 177 EGAQAVALRI--SGTKAAFYNCKIIGFQDTLCDDRGNHFFKDCHIQGTVDFIFGSGKSLY 234
+ QAVAL + SG +A F + ++G+QDTL G FF DC I GTVDFIFG G +L+
Sbjct: 126 KDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALF 185
Query: 235 LSTEL 239
+ +L
Sbjct: 186 NNCDL 190
>pdb|2NSP|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NSP|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide I
pdb|2NST|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NST|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Ii
pdb|2NT6|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT6|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iii
pdb|2NT9|A Chain A, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
pdb|2NT9|B Chain B, Crystal Structure Of Pectin Methylesterase D178a Mutant In
Complex With Hexasaccharide Iv
Length = 342
Score = 84.3 bits (207), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 66/185 (35%), Positives = 91/185 (49%), Gaps = 18/185 (9%)
Query: 71 VIKVNQDGSGEFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKPFI-----TFY 125
V K + DG FKTI DAI S P G+T VIL I G Y E++ I R+ +
Sbjct: 8 VSKSSSDGK-TFKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNNLHLKGESRNGA 65
Query: 126 GSPDAMPNVTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANS---------SPRPDGKR 176
A T ++GT S+T+ + + F A ++ I N S K
Sbjct: 66 VIAAATAAGTLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKI 125
Query: 177 EGAQAVALRI--SGTKAAFYNCKIIGFQDTLCDDRGNHFFKDCHIQGTVDFIFGSGKSLY 234
+ QAVAL + SG +A F + ++G+Q TL G FF DC I GTVDFIFG G +L+
Sbjct: 126 KDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALF 185
Query: 235 LSTEL 239
+ +L
Sbjct: 186 NNCDL 190
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 78.6 bits (192), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 76/251 (30%), Positives = 118/251 (47%), Gaps = 32/251 (12%)
Query: 62 LSTAQAGQRVIKVNQDGSG-EFKTINDAINSIPQGNTKRVILSIGAGEYVEKIKIDRSKP 120
L T A Q V+ G EF +IN A+ S P+ +T +I + G Y E++++ RS
Sbjct: 23 LGTVNAAQYNAVVSTTPQGDEFSSINAALKSAPKDDTPFIIF-LKNGVYTERLEVARSHV 81
Query: 121 FI-------TFYGSPDAMPNVTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANSSPRPD 173
+ T G+ A + G +++GT S+T++V + F A N+ I N P
Sbjct: 82 TLKGENRDGTVIGANTAAGMLNPQG--EKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPA 139
Query: 174 GKREG---------AQAVALRIS--GTKAAFYNCKIIGFQDTLCDDRGNH-FFKDCHIQG 221
K++ QAVAL ++ KA F K+ G+QDTL G+ +F DC I G
Sbjct: 140 NKKKADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISG 199
Query: 222 TVDFIFGSGKSLYLSTELRAMGDTGLT----VITAHARESESEDNGFAFVHCTIEGS--- 274
VDFIFGSG +++ + + A + + ITA + + S G F++ +
Sbjct: 200 HVDFIFGSGITVFDNCNIVARDRSDIEPPYGYITAPSTLTTSP-YGLIFINSRLTKEPGV 258
Query: 275 -GNGTYLGRAW 284
N LGR W
Sbjct: 259 PANSFALGRPW 269
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 34.7 bits (78), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 33/74 (44%), Gaps = 12/74 (16%)
Query: 181 AVALRISGTKAAFYNCKIIGFQDTL------------CDDRGNHFFKDCHIQGTVDFIFG 228
AVALR G + N I+G Q+T + + + +I+G VD + G
Sbjct: 225 AVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPRTLVTNSYIEGDVDIVSG 284
Query: 229 SGKSLYLSTELRAM 242
G ++ +TE R +
Sbjct: 285 RGAVVFDNTEFRVV 298
>pdb|4I3G|A Chain A, Crystal Structure Of Desr, A Beta-glucosidase From
Streptomyces Venezueale In Complex With D-glucose.
pdb|4I3G|B Chain B, Crystal Structure Of Desr, A Beta-glucosidase From
Streptomyces Venezueale In Complex With D-glucose
Length = 829
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 6/69 (8%)
Query: 120 PFITFYGSPDAMPNVTFGGTAKEYGTVDSATLIV-ESDYFMAVNIIIANSSPRPDGKREG 178
P F+G +A+ GT E SA IV + + F +++A +PRP+ + G
Sbjct: 307 PPAKFFG--EALKTAVLNGTVPEAAVTRSAERIVGQMEKF---GLLLATPAPRPERDKAG 361
Query: 179 AQAVALRIS 187
AQAV+ +++
Sbjct: 362 AQAVSRKVA 370
>pdb|2QZW|A Chain A, Secreted Aspartic Proteinase (Sap) 1 From Candida Albicans
pdb|2QZW|B Chain B, Secreted Aspartic Proteinase (Sap) 1 From Candida Albicans
Length = 341
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 44/157 (28%), Positives = 60/157 (38%), Gaps = 29/157 (18%)
Query: 91 SIPQGNTKRVILSIG------AGEY------VEKIKIDRSKPFITFYGSPDAMP-NVTFG 137
SIPQG IL IG AG+Y ++ + + + SP+A + FG
Sbjct: 118 SIPQG-----ILGIGYKTNEAAGDYDNVPVTLKNQGVIAKNAYSLYLNSPNAATGQIIFG 172
Query: 138 GTAKEYGTVDSATLIVESDYFMAVNIIIANSSPRPDGKREGAQAVALRISGTKAAFYNCK 197
G K + + V SD + + + +S + GK L SGT +
Sbjct: 173 GVDKAKYSGSLIAVPVTSDRELRITL----NSLKAVGKNINGNIDVLLDSGTTITYLQQD 228
Query: 198 -----IIGFQDTLCDDRGNHFF--KDCHIQGTVDFIF 227
I FQ L D H F DC GTVDF F
Sbjct: 229 VAQDIIDAFQAELKSDGQGHTFYVTDCQTSGTVDFNF 265
>pdb|3V39|A Chain A, Bd3459, A Predatory Peptidoglycan Endopeptidase From
Bdellovibrio Bacteriovorus
Length = 418
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 216 DCHIQGTVDFIFGSGKSLYLSTELRAMGDTGLTVIT 251
D HI+G+ D +FG S +L +EL M T + +T
Sbjct: 69 DIHIEGSRDPLFGRNMSYFLISELNRMKITKIEKLT 104
>pdb|3ATS|A Chain A, Crystal Structure Of Rv3168
pdb|3ATT|A Chain A, Crystal Structure Of Rv3168 With Atp
Length = 357
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%), Gaps = 3/34 (8%)
Query: 332 PAERVEYTKQLSDAEARPFLVLDYVQGNQWILPP 365
P RV + + D PF ++DYV+G ++PP
Sbjct: 91 PVPRVRWIETTGDVLGTPFFLMDYVEG---VVPP 121
>pdb|2QZX|A Chain A, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
pdb|2QZX|B Chain B, Secreted Aspartic Proteinase (Sap) 5 From Candida Albicans
Length = 342
Score = 28.1 bits (61), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 53/140 (37%), Gaps = 16/140 (11%)
Query: 134 VTFGGTAKEYGTVDSATLIVESDYFMAVNIIIANSSPRPDGKREGAQAVALRISGTKAAF 193
+ FGG K + L + S+ + V + S G+ A L SGT ++
Sbjct: 170 IIFGGIDKAKYSGSLVDLPITSEKKLTVGL----RSVNVRGRNVDANTNVLLDSGTTISY 225
Query: 194 YNCKI-------IGFQDTLCDDRGNHFF-KDCHIQGTVDFIFGSGKSLYLSTE---LRAM 242
+ I IG Q D GN + DC GT+DF FG+ + + +
Sbjct: 226 FTRSIVRNILYAIGAQMKF-DSAGNKVYVADCKTSGTIDFQFGNNLKISVPVSEFLFQTY 284
Query: 243 GDTGLTVITAHARESESEDN 262
+G R ESEDN
Sbjct: 285 YTSGKPFPKCEVRIRESEDN 304
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 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,467,192
Number of Sequences: 62578
Number of extensions: 498843
Number of successful extensions: 1147
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1123
Number of HSP's gapped (non-prelim): 24
length of query: 369
length of database: 14,973,337
effective HSP length: 100
effective length of query: 269
effective length of database: 8,715,537
effective search space: 2344479453
effective search space used: 2344479453
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: 52 (24.6 bits)