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= 044741
(196 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 = 109 bits (272), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 59/154 (38%), Positives = 90/154 (58%), Gaps = 5/154 (3%)
Query: 48 GRGDFRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTKITWS 107
G GD++T+ EA+ + P+++ I + G+YRE + VP K I G + T IT S
Sbjct: 15 GSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTSTIITAS 74
Query: 108 ----DGGSILDSATLTVLASHFVARSLTIQNTYGSYG-KAVALRVSADRAAFYGCRILSY 162
DG + +SAT+ + + F+AR +T QNT G+ +AVALRV +D +AFY C IL+Y
Sbjct: 75 KNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQAVALRVGSDLSAFYRCDILAY 134
Query: 163 QHTLLDDTGNHYYSKCYIEGATDFISGNANSLFE 196
Q +L + ++ C+I G DFI GNA + +
Sbjct: 135 QDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQ 168
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 98.6 bits (244), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 60/158 (37%), Positives = 85/158 (53%), Gaps = 5/158 (3%)
Query: 44 VEKYGRGDFRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTK 103
V + G GD++T+ EA+ + PD + I V G Y+E + V +NK + I G T
Sbjct: 7 VAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYATT 66
Query: 104 ITWS----DGGSILDSATLTVLASHFVARSLTIQNTYG-SYGKAVALRVSADRAAFYGCR 158
IT S DG + SATL + F+ + + IQNT G + +AVALRV AD + CR
Sbjct: 67 ITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNTAGPAKDQAVALRVGADMSVINRCR 126
Query: 159 ILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSLFE 196
I +YQ TL + +Y Y+ G DFI GNA +F+
Sbjct: 127 IDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQ 164
>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 = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 53/172 (30%), Positives = 79/172 (45%), Gaps = 30/172 (17%)
Query: 52 FRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTKITW----- 106
F+TI +AI S P ++ V + + G+Y E++ + N + + G + I
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 107 ---SDGGS--ILDSATLTVLASHFVARSLTIQNTYG---------------SYGKAVALR 146
SDG S+T+T+ A F A+SLTI+N + +AVAL
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 147 V--SADRAAFYGCRILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSLFE 196
V S DRA F ++ YQ TL G ++S C I G DFI G+ +LF
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFN 186
>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 = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 53/172 (30%), Positives = 79/172 (45%), Gaps = 30/172 (17%)
Query: 52 FRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTKITW----- 106
F+TI +AI S P ++ V + + G+Y E++ + N + + G + I
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 107 ---SDGGS--ILDSATLTVLASHFVARSLTIQNTYG---------------SYGKAVALR 146
SDG S+T+T+ A F A+SLTI+N + +AVAL
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 147 V--SADRAAFYGCRILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSLFE 196
V S DRA F ++ YQ TL G ++S C I G DFI G+ +LF
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFN 186
>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 = 60.5 bits (145), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 53/172 (30%), Positives = 79/172 (45%), Gaps = 30/172 (17%)
Query: 52 FRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTKITW----- 106
F+TI +AI S P ++ V + + G+Y E++ + N + + G + I
Sbjct: 18 FKTIADAIASAPAGSTPFVIL-IKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 107 ---SDGGS--ILDSATLTVLASHFVARSLTIQNTYG---------------SYGKAVALR 146
SDG S+T+T+ A F A+SLTI+N + +AVAL
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 147 V--SADRAAFYGCRILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSLFE 196
V S DRA F ++ YQ TL G ++S C I G DFI G+ +LF
Sbjct: 135 VTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFN 186
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 55.8 bits (133), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 84/177 (47%), Gaps = 32/177 (18%)
Query: 49 RGD-FRTIQEAIDSVPDNNSELVFISVAPGIYREKIIVPANKPFITISGTKASRTKITWS 107
+GD F +I A+ S P +++ + I + G+Y E++ V + +T+ G T I +
Sbjct: 40 QGDEFSSINAALKSAPKDDTPFI-IFLKNGVYTERLEV--ARSHVTLKGENRDGTVIGAN 96
Query: 108 DGGSILD----------SATLTVLASHFVARSLTIQNTYG-----------------SYG 140
+L+ S+T+ V A +F A +LTI+N + +
Sbjct: 97 TAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQA 156
Query: 141 KAVALRVSADRAAFYGCRILSYQHTLLDDTGNH-YYSKCYIEGATDFISGNANSLFE 196
A+ L ++D+A F ++ YQ TL TG+ Y+S C I G DFI G+ ++F+
Sbjct: 157 VALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFD 213
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 38.1 bits (87), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 51/201 (25%), Positives = 73/201 (36%), Gaps = 58/201 (28%)
Query: 54 TIQEAIDS-VPDNNSELVFISVAPGIYREKIIVPANKPFITISGT--KASRTKITWS-DG 109
TIQ A+D+ + ++ +I+V PG Y+ + VPA IT+ GT K KI S DG
Sbjct: 91 TIQAAVDAAIIKRTNKRQYIAVMPGEYQGTVYVPAAPGGITLYGTGEKPIDVKIGLSLDG 150
Query: 110 G-------------------------------------SILDSATLTVLASHFVARSLTI 132
G +L SA + ++LTI
Sbjct: 151 GMSPADWRHDVNPRGKYMPGKPAWYMYDSCQSKRSDSIGVLCSAVFWSQNNGLQLQNLTI 210
Query: 133 QNTYGS-----YGKAVALRVSADRAAFYGCRILSYQHTLL------------DDTGNHYY 175
+NT G AVALR D+ IL Q+T +
Sbjct: 211 ENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQPRTLV 270
Query: 176 SKCYIEGATDFISGNANSLFE 196
+ YIEG D +SG +F+
Sbjct: 271 TNSYIEGDVDIVSGRGAVVFD 291
>pdb|1ZOS|A Chain A, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
pdb|1ZOS|B Chain B, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
pdb|1ZOS|C Chain C, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
pdb|1ZOS|D Chain D, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
pdb|1ZOS|E Chain E, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
pdb|1ZOS|F Chain F, Structure Of 5'-MethylthionadenosineS-Adenosylhomocysteine
Nucleosidase From S. Pneumoniae With A Transition-State
Inhibitor Mt-Imma
Length = 230
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 46/103 (44%), Gaps = 7/103 (6%)
Query: 95 SGTKASRTKITWSDG-GSILDSATLTVLASHFVARSLTIQNTYGSYGKAVALR--VSADR 151
+GT AS + G G ++ + ++ +LA HF +L + G+ + +A+ V AD+
Sbjct: 35 TGTIASHEVVLVESGIGKVMSAMSVAILADHFQVDALINTGSAGAVAEGIAVGDVVIADK 94
Query: 152 AAFYGCRILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSL 194
A++ + ++ + G Y E F++ SL
Sbjct: 95 LAYHDVDVTAFGYAY----GQMAQQPLYFESDKTFVAQIQESL 133
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 35 DFSTAVLIRVEKYGRGDFRTIQEAIDS-VPDNNSELVFISVAPGIYREKIIVPANKPF 91
D S ++ +K DF+TI E I S +P + L+F + P +E ++ +KP+
Sbjct: 163 DCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSLLFSATFPLTVKEFMVKHLHKPY 220
>pdb|2VYC|A Chain A, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|B Chain B, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|C Chain C, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|D Chain D, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|E Chain E, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|F Chain F, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|G Chain G, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|H Chain H, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|I Chain I, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
pdb|2VYC|J Chain J, Crystal Structure Of Acid Induced Arginine Decarboxylase
From E. Coli
Length = 755
Score = 27.3 bits (59), Expect = 5.5, Method: Composition-based stats.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 54 TIQEAIDSVPDNNSELVFISVAPGIYREKIIVP 86
T +EA +++ DNN ELV I PG ++P
Sbjct: 664 TPREAYNAIVDNNVELVSIENLPGRIAANSVIP 696
>pdb|3MMS|A Chain A, Crystal Structure Of Streptococcus Pneumoniae MtaSAH
NUCLEO Complex With 8-Aminoadenine
Length = 230
Score = 26.9 bits (58), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 22/103 (21%), Positives = 45/103 (43%), Gaps = 7/103 (6%)
Query: 95 SGTKASRTKITWSDG-GSILDSATLTVLASHFVARSLTIQNTYGSYGKAVALR--VSADR 151
+GT S + G G ++ + ++ +LA HF +L + G+ + +A+ V AD+
Sbjct: 35 TGTIVSHEVVLVESGIGKVMSAMSVAILAVHFQVDALINTGSAGAVAEGIAVGDVVIADK 94
Query: 152 AAFYGCRILSYQHTLLDDTGNHYYSKCYIEGATDFISGNANSL 194
A++ + ++ + G Y E F++ SL
Sbjct: 95 LAYHDVDVTAFGYAY----GQMAQQPLYFESDKTFVAQIQESL 133
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
0.319 0.133 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,522,950
Number of Sequences: 62578
Number of extensions: 201344
Number of successful extensions: 565
Number of sequences better than 100.0: 19
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 542
Number of HSP's gapped (non-prelim): 20
length of query: 196
length of database: 14,973,337
effective HSP length: 94
effective length of query: 102
effective length of database: 9,091,005
effective search space: 927282510
effective search space used: 927282510
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: 49 (23.5 bits)