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= 024928
(260 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 = 172 bits (437), Expect = 1e-43, Method: Compositional matrix adjust.
Identities = 94/254 (37%), Positives = 132/254 (51%), Gaps = 21/254 (8%)
Query: 6 VTVAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLCPEN 65
V VA DG+GDY+TV EA+ P + R +IRI GVYR+ V VPK K I G +
Sbjct: 9 VVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTS 68
Query: 66 TVLTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFENSAPEGSGQAVAIR 125
T++T + G+ TF +V G F+A +ITF+N+A QAVA+R
Sbjct: 69 TIITASKNVQD----------GSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALR 118
Query: 126 VTADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFIFGNSTALIEHCHIHCKSQG 185
V +D AFY C L +QD+LY+H +Q+ +C+I G+VDFIFGN+ +++ C IH + G
Sbjct: 119 VGSDLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQDCDIHARRPG 178
Query: 186 -----FITAQSRKSSQETTGYVFLRCVITGNGGTGYI------YLGRPWGPFGRVVFAFT 234
+TAQ R + TG V + I + YLGRPW + R V +
Sbjct: 179 SGQKNMVTAQGRTDPNQNTGIVIQKSRIGATSDLQPVQSSFPTYLGRPWKEYSRTVVMQS 238
Query: 235 YMDQCIRHVGWHNW 248
+ I GW W
Sbjct: 239 SITNVINPAGWFPW 252
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 142 bits (359), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 82/252 (32%), Positives = 122/252 (48%), Gaps = 21/252 (8%)
Query: 8 VAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLCPENTV 67
VAQDGTGDY+T+ EA+ P + R +I + G Y++ V V K + + G T
Sbjct: 7 VAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYATT 66
Query: 68 LTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFENSAPEGSGQAVAIRVT 127
+T + V G+ TF ++ G+ F+ ++I +N+A QAVA+RV
Sbjct: 67 ITGSLNV----------VDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVG 116
Query: 128 ADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFIFGNSTALIEHCHIHCKS---- 183
AD CR +QDTLY H +Q+ +D Y+ G+VDFIFGN+ + + C + +
Sbjct: 117 ADMSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQKCQLVARKPGKY 176
Query: 184 -QGFITAQSRKSSQETTGYVFLRCVITGNGGTGYI------YLGRPWGPFGRVVFAFTYM 236
Q +TAQ R + TG C I + + YLGRPW + R V +Y+
Sbjct: 177 QQNMVTAQGRTDPNQATGTSIQFCNIIASSDLEPVLKEFPTYLGRPWKEYSRTVVMESYL 236
Query: 237 DQCIRHVGWHNW 248
I GW W
Sbjct: 237 GGLINPAGWAEW 248
>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 = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 84/294 (28%), Positives = 130/294 (44%), Gaps = 55/294 (18%)
Query: 3 SCVVTVAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLC 62
+ VV+ + ++T+ +AI P +T +I I GVY + + + T+N + L G
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTP-FVILIKNGVYNERLTI--TRNNLHLKGES 61
Query: 63 PENTVLTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFEN---------- 112
V+ A ++ + GT G ++ + +DF A+++T N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKW----GTAGSSTITISAKDFSAQSLTIRNDFDFPANQAK 117
Query: 113 ----SAPEGSGQAVAIRVT--ADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFI 166
S+ QAVA+ VT DR F + +G+QDTLY+ G+ + DC I G+VDFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFI 177
Query: 167 FGNSTALIEHCHI------HCKS---QGFITAQSRKSSQETTGYVFL--RCVITGNGGTG 215
FG+ TAL +C + KS G++TA S +Q+ G V R + +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPSTNINQK-YGLVITNSRVIRESDSVPA 236
Query: 216 YIY-LGRPWGP--------------FGRVVFAFTYMDQCIRHVGWHNWGKQNAK 254
Y LGRPW P G+ VF T MD I + W K + K
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI-----YGWDKMSGK 285
>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 = 89.0 bits (219), Expect = 3e-18, Method: Compositional matrix adjust.
Identities = 84/294 (28%), Positives = 130/294 (44%), Gaps = 55/294 (18%)
Query: 3 SCVVTVAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLC 62
+ VV+ + ++T+ +AI P +T +I I GVY + + + T+N + L G
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTP-FVILIKNGVYNERLTI--TRNNLHLKGES 61
Query: 63 PENTVLTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFEN---------- 112
V+ A ++ + GT G ++ + +DF A+++T N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKW----GTAGSSTITISAKDFSAQSLTIRNDFDFPANQAK 117
Query: 113 ----SAPEGSGQAVAIRVT--ADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFI 166
S+ QAVA+ VT DR F + +G+QDTLY+ G+ + DC I G+VDFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFI 177
Query: 167 FGNSTALIEHCHI------HCKS---QGFITAQSRKSSQETTGYVFL--RCVITGNGGTG 215
FG+ TAL +C + KS G++TA S +Q+ G V R + +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPSTNINQK-YGLVITNSRVIRESDSVPA 236
Query: 216 YIY-LGRPWGP--------------FGRVVFAFTYMDQCIRHVGWHNWGKQNAK 254
Y LGRPW P G+ VF T MD I + W K + K
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI-----YGWDKMSGK 285
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 87.4 bits (215), Expect = 7e-18, Method: Compositional matrix adjust.
Identities = 82/292 (28%), Positives = 129/292 (44%), Gaps = 54/292 (18%)
Query: 3 SCVVTVAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLC 62
+ VV+ G ++ ++ A+ P +T +I + GVY + + V ++ +TL G
Sbjct: 32 NAVVSTTPQGD-EFSSINAALKSAPKDDTP-FIIFLKNGVYTERLEVARSH--VTLKGEN 87
Query: 63 PENTVLTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFENS--------- 113
+ TV+ NTA + + Q + GT G +V+V +F AEN+T N
Sbjct: 88 RDGTVIG-ANTAAGMLNPQGEKW---GTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKK 143
Query: 114 -----APEGSGQAVAIRV--TADRCAFYNCRFLGWQDTLYLHYG-KQYLKDCYIEGSVDF 165
QAVA+ + +D+ F + G+QDTLY G + Y DC I G VDF
Sbjct: 144 ADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDF 203
Query: 166 IFGNSTALIEHCHIHCKSQ-------GFITAQSRKSSQETTGYVFLRCVITGNGG--TGY 216
IFG+ + ++C+I + + G+ITA S ++ G +F+ +T G
Sbjct: 204 IFGSGITVFDNCNIVARDRSDIEPPYGYITAPSTLTTSP-YGLIFINSRLTKEPGVPANS 262
Query: 217 IYLGRPWGP--------------FGRVVFAFTYMDQCIRHVGWHNWGKQNAK 254
LGRPW P G+ VF T MD I + W K + K
Sbjct: 263 FALGRPWHPTTTFADGRYADPAAIGQSVFINTTMDDHI-----YGWDKMSGK 309
>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 = 85.5 bits (210), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 83/294 (28%), Positives = 129/294 (43%), Gaps = 55/294 (18%)
Query: 3 SCVVTVAQDGTGDYRTVQEAIDRVPLCNTRRTLIRISPGVYRQPVYVPKTKNLITLAGLC 62
+ VV+ + ++T+ +AI P +T +I I GVY + + + T+N + L G
Sbjct: 5 NAVVSKSSSDGKTFKTIADAIASAPAGSTP-FVILIKNGVYNERLTI--TRNNLHLKGES 61
Query: 63 PENTVLTWNNTATKIEHHQAARVIGTGTFGCGSVIVEGEDFVAENITFEN---------- 112
V+ A ++ + GT G ++ + +DF A+++T N
Sbjct: 62 RNGAVIAAATAAGTLKSDGSKW----GTAGSSTITISAKDFSAQSLTIRNDFDFPANQAK 117
Query: 113 ----SAPEGSGQAVAIRVT--ADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFI 166
S+ QAVA+ VT DR F + +G+Q TLY+ G+ + DC I G+VDFI
Sbjct: 118 SDSDSSKIKDTQAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFI 177
Query: 167 FGNSTALIEHCHI------HCKS---QGFITAQSRKSSQETTGYVFL--RCVITGNGGTG 215
FG+ TAL +C + KS G++TA S +Q+ G V R + +
Sbjct: 178 FGDGTALFNNCDLVSRYRADVKSGNVSGYLTAPSTNINQK-YGLVITNSRVIRESDSVPA 236
Query: 216 YIY-LGRPWGP--------------FGRVVFAFTYMDQCIRHVGWHNWGKQNAK 254
Y LGRPW P G+ VF T MD I + W K + K
Sbjct: 237 KSYGLGRPWHPTTTFSDGRYADPNAIGQTVFLNTSMDNHI-----YGWDKMSGK 285
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/210 (23%), Positives = 76/210 (36%), Gaps = 45/210 (21%)
Query: 16 YRTVQEAIDRVPLCNT-RRTLIRISPGVYRQPVYVPKTKNLITLAG-------------- 60
+ T+Q A+D + T +R I + PG Y+ VYVP ITL G
Sbjct: 89 HTTIQAAVDAAIIKRTNKRQYIAVMPGEYQGTVYVPAAPGGITLYGTGEKPIDVKIGLSL 148
Query: 61 ------------LCPENTVLTWNNTATKIEHHQAARVIGTGTFGCGSVI-VEGEDFVAEN 107
+ P + + Q+ R G C +V + +N
Sbjct: 149 DGGMSPADWRHDVNPRGKYMPGKPAWYMYDSCQSKRSDSIGVL-CSAVFWSQNNGLQLQN 207
Query: 108 ITFEN----SAPEGSGQAVAIRVTADRCAFYNCRFLGWQDTLY---------LHYGKQ-- 152
+T EN S G+ AVA+R D+ N LG Q+T + L +Q
Sbjct: 208 LTIENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPR 267
Query: 153 -YLKDCYIEGSVDFIFGNSTALIEHCHIHC 181
+ + YIEG VD + G + ++
Sbjct: 268 TLVTNSYIEGDVDIVSGRGAVVFDNTEFRV 297
>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 = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 15/23 (65%)
Query: 151 KQYLKDCYIEGSVDFIFGNSTAL 173
K Y+ DC G++DF FGN+ +
Sbjct: 250 KVYVADCKTSGTIDFQFGNNLKI 272
>pdb|4G41|A Chain A, Crystal Structure Of S-Adenosylhomocysteine Nucleosidase
From Streptococcus Pyogenes In Complex With
5-Methylthiotubericidin
pdb|4G41|B Chain B, Crystal Structure Of S-Adenosylhomocysteine Nucleosidase
From Streptococcus Pyogenes In Complex With
5-Methylthiotubericidin
Length = 236
Score = 26.9 bits (58), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 43/101 (42%), Gaps = 9/101 (8%)
Query: 67 VLTWNNTATKIEHHQAARVIGTGTFGC-GSVIVEGEDFVAENITFENSAPEGSGQAVAIR 125
V++ A +EH +A +I TG+ G S + G+ VA+ + + + G A
Sbjct: 58 VMSAMTVAILVEHFKAQAIINTGSAGAVASHLAIGDVVVADRLVYHDVDATAFGYAYG-- 115
Query: 126 VTADRCAFYNCRFLGWQDTLYLHYGKQYLKDCYIEGSVDFI 166
A + +Y+C D ++ KQ LK G V I
Sbjct: 116 QMAGQPLYYDC------DPQFVAIFKQVLKHEKTNGQVGLI 150
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
0.323 0.138 0.451
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,601,032
Number of Sequences: 62578
Number of extensions: 375669
Number of successful extensions: 704
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 689
Number of HSP's gapped (non-prelim): 11
length of query: 260
length of database: 14,973,337
effective HSP length: 97
effective length of query: 163
effective length of database: 8,903,271
effective search space: 1451233173
effective search space used: 1451233173
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)