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= 039329
(420 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GQ8|A Chain A, Pectin Methylesterase From Carrot
Length = 319
Score = 160 bits (405), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 104/309 (33%), Positives = 153/309 (49%), Gaps = 20/309 (6%)
Query: 103 LTVDLHGCANFSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLN 162
+ V G ++ +V +AV A P S ++ +I I + YRE V V K N++FLG G +
Sbjct: 9 VVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTS 68
Query: 163 TIIEWNDTANSTGGTAYSSSVAVFASNFTAYNISFMNTAPWPSPGDVGGQAVALRIGGDQ 222
TII + T S++VA + F A +I+F NTA G QAVALR+G D
Sbjct: 69 TIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTA-----GAAKHQAVALRVGSDL 123
Query: 223 AAFYNCGFYGAQDTLYDDHGRHYFKDCFIQGSIDFIFGNARSLYEDCTINSIAEQVPDGM 282
+AFY C QD+LY R +F +CFI G++DFIFGNA + +DC I++ + P
Sbjct: 124 SAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHA---RRPGSG 180
Query: 283 VSGSITAQGRQSMSEETGFSFVNCQIDGTGRV---------WLGRAWGVCAAVVFSKTYM 333
+TAQGR ++ TG +I T + +LGR W + V ++ +
Sbjct: 181 QKNMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQSSI 240
Query: 334 ADVVSSDGWNDWQDPSRDLTVFFGEYDCLGPGANYSYRAS---FGKQLMQYEAAPYMNIS 390
+V++ GW W T+++GEY G GA S R + F EA + S
Sbjct: 241 TNVINPAGWFPWDGNFALDTLYYGEYQNTGAGAATSGRVTWKGFKVITSSTEAQGFTPGS 300
Query: 391 YIDGDEWLH 399
+I G WL
Sbjct: 301 FIAGGSWLK 309
>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 = 90/303 (29%), Positives = 145/303 (47%), Gaps = 20/303 (6%)
Query: 109 GCANFSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLNTIIEWN 168
G ++ ++ +AV A P S ++ +I + TY+E V V +NK NL+ +G G T I +
Sbjct: 11 GTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYATTITGS 70
Query: 169 DTANSTGGTAYSSSVAVFASNFTAYNISFMNTAPWPSPGDVGGQAVALRIGGDQAAFYNC 228
T S+++A F +I NTA G QAVALR+G D + C
Sbjct: 71 LNVVDGSTTFRSATLAAVGQGFILQDICIQNTA-----GPAKDQAVALRVGADMSVINRC 125
Query: 229 GFYGAQDTLYDDHGRHYFKDCFIQGSIDFIFGNARSLYEDCTINSIAEQVPDGMVSGSIT 288
QDTLY R +++D ++ G++DFIFGNA +++ C + + P +T
Sbjct: 126 RIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKC---QLVARKPGKYQQNMVT 182
Query: 289 AQGRQSMSEETGFSFVNCQIDGTGRV---------WLGRAWGVCAAVVFSKTYMADVVSS 339
AQGR ++ TG S C I + + +LGR W + V ++Y+ +++
Sbjct: 183 AQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYLGGLINP 242
Query: 340 DGWNDWQDPSRDLTVFFGEYDCLGPGANYSYRASF-GKQLM--QYEAAPYMNISYIDGDE 396
GW +W T+++GE+ GPGA S R + G ++ +A P+ I G
Sbjct: 243 AGWAEWDGDFALKTLYYGEFMNNGPGAGTSKRVKWPGYHVITDPAKAMPFTVAKLIQGGS 302
Query: 397 WLH 399
WL
Sbjct: 303 WLR 305
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/212 (29%), Positives = 105/212 (49%), Gaps = 18/212 (8%)
Query: 113 FSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLNTIIEWN---- 168
F ++ A+ + P+ S + +I+I + Y E++ + N +L R
Sbjct: 18 FKTIADAIASAPAGS-TPFVILIKNGVYNERLTITRNNLHLKGESRNGAVIAAATAAGTL 76
Query: 169 DTANSTGGTAYSSSVAVFASNFTAYNISFMNTAPWP-----SPGDVGG----QAVALRI- 218
+ S GTA SS++ + A +F+A +++ N +P S D QAVAL +
Sbjct: 77 KSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVT 136
Query: 219 -GGDQAAFYNCGFYGAQDTLYDDHGRHYFKDCFIQGSIDFIFGNARSLYEDCT-INSIAE 276
GD+A F + G QDTLY GR +F DC I G++DFIFG+ +L+ +C ++
Sbjct: 137 KSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRA 196
Query: 277 QVPDGMVSGSITAQGRQSMSEETGFSFVNCQI 308
V G VSG +TA +++++ G N ++
Sbjct: 197 DVKSGNVSGYLTAPS-TNINQKYGLVITNSRV 227
>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 = 79.7 bits (195), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 62/212 (29%), Positives = 105/212 (49%), Gaps = 18/212 (8%)
Query: 113 FSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLNTIIEWN---- 168
F ++ A+ + P+ S + +I+I + Y E++ + N +L R
Sbjct: 18 FKTIADAIASAPAGS-TPFVILIKNGVYNERLTITRNNLHLKGESRNGAVIAAATAAGTL 76
Query: 169 DTANSTGGTAYSSSVAVFASNFTAYNISFMNTAPWP-----SPGDVGG----QAVALRI- 218
+ S GTA SS++ + A +F+A +++ N +P S D QAVAL +
Sbjct: 77 KSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVT 136
Query: 219 -GGDQAAFYNCGFYGAQDTLYDDHGRHYFKDCFIQGSIDFIFGNARSLYEDCT-INSIAE 276
GD+A F + G QDTLY GR +F DC I G++DFIFG+ +L+ +C ++
Sbjct: 137 KSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRA 196
Query: 277 QVPDGMVSGSITAQGRQSMSEETGFSFVNCQI 308
V G VSG +TA +++++ G N ++
Sbjct: 197 DVKSGNVSGYLTAPS-TNINQKYGLVITNSRV 227
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 75/232 (32%), Positives = 110/232 (47%), Gaps = 30/232 (12%)
Query: 113 FSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLNTIIEWNDTA- 171
FSS+ A+ + P + +I + + Y E++ V ++++ G T+I N A
Sbjct: 44 FSSINAALKSAPK-DDTPFIIFLKNGVYTERLEVA--RSHVTLKGENRDGTVIGANTAAG 100
Query: 172 --NSTG---GTAYSSSVAVFASNFTAYNISFMNTAPWPS--------PGDVGG-QAVALR 217
N G GT+ SS+V V A NFTA N++ N +P+ P + QAVAL
Sbjct: 101 MLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQAVALL 160
Query: 218 IG--GDQAAFYNCGFYGAQDTLYDDHG-RHYFKDCFIQGSIDFIFGNARSLYEDCTINSI 274
+ D+A F G QDTLY G R YF DC I G +DFIFG+ +++++C I +
Sbjct: 161 LAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNI--V 218
Query: 275 AEQVPDGMVS-GSITAQGRQSMSEETGFSFVNCQIDGTGRV-----WLGRAW 320
A D G ITA + S G F+N ++ V LGR W
Sbjct: 219 ARDRSDIEPPYGYITAPSTLTTS-PYGLIFINSRLTKEPGVPANSFALGRPW 269
>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 = 76.6 bits (187), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 61/212 (28%), Positives = 104/212 (49%), Gaps = 18/212 (8%)
Query: 113 FSSVQKAVDAVPSFSPSKTLIIIDSATYREKVVVNANKTNLIFLGRGYLNTIIEWN---- 168
F ++ A+ + P+ S + +I+I + Y E++ + N +L R
Sbjct: 18 FKTIADAIASAPAGS-TPFVILIKNGVYNERLTITRNNLHLKGESRNGAVIAAATAAGTL 76
Query: 169 DTANSTGGTAYSSSVAVFASNFTAYNISFMNTAPWP-----SPGDVGG----QAVALRI- 218
+ S GTA SS++ + A +F+A +++ N +P S D QAVAL +
Sbjct: 77 KSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALYVT 136
Query: 219 -GGDQAAFYNCGFYGAQDTLYDDHGRHYFKDCFIQGSIDFIFGNARSLYEDCT-INSIAE 276
GD+A F + G Q TLY GR +F DC I G++DFIFG+ +L+ +C ++
Sbjct: 137 KSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNCDLVSRYRA 196
Query: 277 QVPDGMVSGSITAQGRQSMSEETGFSFVNCQI 308
V G VSG +TA +++++ G N ++
Sbjct: 197 DVKSGNVSGYLTAPS-TNINQKYGLVITNSRV 227
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 33.5 bits (75), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 34/80 (42%), Gaps = 15/80 (18%)
Query: 213 AVALRIGGDQAAFYNCGFYGAQDTLY------------DDHGRHYFKDCFIQGSIDFIFG 260
AVALR GDQ N G Q+T + + R + +I+G +D + G
Sbjct: 225 AVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPRTLVTNSYIEGDVDIVSG 284
Query: 261 NARSLYEDC---TINSIAEQ 277
++++ +NS +Q
Sbjct: 285 RGAVVFDNTEFRVVNSRTQQ 304
>pdb|2FBO|J Chain J, Crystal Structure Of The Two Tandem V-Type Regions Of
Vcbp3 (V-Region-Containing Chitin Binding Protein) To
1.85 A
Length = 250
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 15/70 (21%)
Query: 342 WNDWQDPSRDLTVFFGEYDCLGPGANY----SYRASFGKQLMQYE----AAPYMNISYID 393
W P R VF G Y+ G G + SY+ SFG L + AAP + ++++
Sbjct: 39 WLKGASPDRSTKVFKGNYNWQGEGLGFVESDSYKESFGDFLGRASVANLAAPTLRLTHV- 97
Query: 394 GDEWLHHHQD 403
H QD
Sbjct: 98 ------HPQD 101
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
0.322 0.137 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,017,580
Number of Sequences: 62578
Number of extensions: 495091
Number of successful extensions: 1021
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 1004
Number of HSP's gapped (non-prelim): 10
length of query: 420
length of database: 14,973,337
effective HSP length: 101
effective length of query: 319
effective length of database: 8,652,959
effective search space: 2760293921
effective search space used: 2760293921
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)