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= 036280
(215 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 = 87.4 bits (215), Expect = 6e-18, Method: Compositional matrix adjust.
Identities = 53/167 (31%), Positives = 81/167 (48%), Gaps = 11/167 (6%)
Query: 39 IVVDHSGHGNFSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIPYEKPFIILKGVGKRK 98
+VV G G++ ++ A+ P ++K I IKAG+YRE V +P +K I+ G G+
Sbjct: 9 VVVAADGSGDYKTVSEAVAAAPEDSKTRYVIRIKAGVYRENVDVPKKKKNIMFLGDGRTS 68
Query: 99 TQIIW----DDHESLAASPTFASFADNVVVKCMSFVNSYNSPRSDNKNPRMPAVAAMVAG 154
T I D + S T A+ + + ++F N+ + + AVA V
Sbjct: 69 TIITASKNVQDGSTTFNSATVAAVGAGFLARDITFQNTAGAAKHQ-------AVALRVGS 121
Query: 155 DKTAFYRCGFSGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIYE 201
D +AFYRC QD+L+ R +F C I G VDFIFG + +
Sbjct: 122 DLSAFYRCDILAYQDSLYVHSNRQFFINCFIAGTVDFIFGNAAVVLQ 168
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 72.0 bits (175), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 60/206 (29%), Positives = 98/206 (47%), Gaps = 25/206 (12%)
Query: 26 SFFKLGS-RAASCQIVVDHSGHGN-FSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIP 83
SF LG+ AA VV + G+ FSSI +A+ + P ++ ++ IF+K G+Y E++ +
Sbjct: 19 SFAVLGTVNAAQYNAVVSTTPQGDEFSSINAALKSAPKDDTPFI-IFLKNGVYTERLEV- 76
Query: 84 YEKPFIILKGVGKRKTQIIWDDHESL----------AASPTFASFADNVVVKCMSFVNSY 133
+ + LKG + T I + + + S T A N + ++ N +
Sbjct: 77 -ARSHVTLKGENRDGTVIGANTAAGMLNPQGEKWGTSGSSTVLVNAPNFTAENLTIRNDF 135
Query: 134 NSPRSDNKNPRMP-------AVAAMVA--GDKTAFYRCGFSGVQDTLWDDQG-RHYFDRC 183
+ P + K P AVA ++A DK F G QDTL+ G R YF C
Sbjct: 136 DFPANKKKADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGYQDTLYSKTGSRSYFSDC 195
Query: 184 TIEGAVDFIFGGGQSIYESMGVMEEE 209
I G VDFIFG G +++++ ++ +
Sbjct: 196 EISGHVDFIFGSGITVFDNCNIVARD 221
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 67.8 bits (164), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 44/166 (26%), Positives = 72/166 (43%), Gaps = 11/166 (6%)
Query: 40 VVDHSGHGNFSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIPYEKPFIILKGVGKRKT 99
VV G G++ ++ A+ P +K I++K G Y+E V + K +++ G G T
Sbjct: 6 VVAQDGTGDYQTLAEAVAAAPDKSKTRYVIYVKRGTYKENVEVASNKMNLMIVGDGMYAT 65
Query: 100 QIIWD----DHESLAASPTFASFADNVVVKCMSFVNSYNSPRSDNKNPRMPAVAAMVAGD 155
I D + S T A+ +++ + N+ P D AVA V D
Sbjct: 66 TITGSLNVVDGSTTFRSATLAAVGQGFILQDICIQNT-AGPAKDQ------AVALRVGAD 118
Query: 156 KTAFYRCGFSGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIYE 201
+ RC QDTL+ R ++ + G VDFIFG +++
Sbjct: 119 MSVINRCRIDAYQDTLYAHSQRQFYRDSYVTGTVDFIFGNAAVVFQ 164
>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 = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 50/171 (29%), Positives = 78/171 (45%), Gaps = 22/171 (12%)
Query: 49 FSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIPYEKPFIILKGVGKRKTQIIWDDHES 108
F +I AI + P+ + +V I IK G+Y E++ I + LKG + I
Sbjct: 18 FKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 109 ----------LAASPTFASFADNVVVKCMSFVNSYNSP----RSDNKNPRMP---AVAAM 151
A S T A + + ++ N ++ P +SD+ + ++ AVA
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 152 V--AGDKTAFYRCGFSGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIY 200
V +GD+ F G QDTL+ GR +F C I G VDFIFG G +++
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALF 185
>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 = 58.2 bits (139), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 50/171 (29%), Positives = 78/171 (45%), Gaps = 22/171 (12%)
Query: 49 FSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIPYEKPFIILKGVGKRKTQIIWDDHES 108
F +I AI + P+ + +V I IK G+Y E++ I + LKG + I
Sbjct: 18 FKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 109 ----------LAASPTFASFADNVVVKCMSFVNSYNSP----RSDNKNPRMP---AVAAM 151
A S T A + + ++ N ++ P +SD+ + ++ AVA
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 152 V--AGDKTAFYRCGFSGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIY 200
V +GD+ F G QDTL+ GR +F C I G VDFIFG G +++
Sbjct: 135 VTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALF 185
>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 = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 77/172 (44%), Gaps = 22/172 (12%)
Query: 49 FSSIQSAIDNIPSNNKNWVCIFIKAGIYREKVRIPYEKPFIILKGVGKRKTQIIWDDHES 108
F +I AI + P+ + +V I IK G+Y E++ I + LKG + I
Sbjct: 18 FKTIADAIASAPAGSTPFV-ILIKNGVYNERLTITRNN--LHLKGESRNGAVIAAATAAG 74
Query: 109 ----------LAASPTFASFADNVVVKCMSFVNSYNSP----RSDNKNPRMP---AVAAM 151
A S T A + + ++ N ++ P +SD+ + ++ AVA
Sbjct: 75 TLKSDGSKWGTAGSSTITISAKDFSAQSLTIRNDFDFPANQAKSDSDSSKIKDTQAVALY 134
Query: 152 V--AGDKTAFYRCGFSGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIYE 201
V +GD+ F G Q TL+ GR +F C I G VDFIFG G +++
Sbjct: 135 VTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFN 186
>pdb|3T5O|A Chain A, Crystal Structure Of Human Complement Component C6
pdb|4A5W|B Chain B, Crystal Structure Of C5b6
pdb|4E0S|B Chain B, Crystal Structure Of C5b-6
Length = 913
Score = 29.3 bits (64), Expect = 1.8, Method: Composition-based stats.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 165 SGVQDTLWDDQGRHYFDRCTIEGAVDFIFGGGQSIYESMGVMEEE 209
S + ++DD G HYF ++ G D ++ ++ G+ EEE
Sbjct: 330 SALYSRIFDDFGTHYFTSGSLGGVYDLLYQFSSEELKNSGLTEEE 374
>pdb|2I14|A Chain A, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
pdb|2I14|B Chain B, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
pdb|2I14|C Chain C, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
pdb|2I14|D Chain D, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
pdb|2I14|E Chain E, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
pdb|2I14|F Chain F, Crystal Structure Of Nicotinate-Nucleotide
Pyrophosphorylase From Pyrococcus Furiosus
Length = 395
Score = 27.7 bits (60), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 30 LGSRAASCQIVVDHSGHGNFSSIQSAID-NIPSNNKNWVCIFIKAGIYREKVR 81
LG + + ++ S GNF I + + +WV IF+ G+ EK++
Sbjct: 231 LGKKLFAVRLDTPSSRRGNFRKIIEEVRWELKVRGYDWVKIFVSGGLDEEKIK 283
>pdb|3OEP|A Chain A, Crystal Structure Of Ttha0988 In Space Group P43212
pdb|3OPF|A Chain A, Crystal Structure Of Ttha0988 In Space Group P212121
pdb|3OPF|B Chain B, Crystal Structure Of Ttha0988 In Space Group P212121
pdb|3OPF|C Chain C, Crystal Structure Of Ttha0988 In Space Group P212121
pdb|3ORE|A Chain A, Crystal Structure Of Ttha0988 In Space Group P6522
pdb|3ORE|B Chain B, Crystal Structure Of Ttha0988 In Space Group P6522
Length = 494
Score = 27.3 bits (59), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 136 PRSDNKNPRMPAVAAMVAGDKTAFY 160
PR + PR+PA A VAG +T Y
Sbjct: 136 PRKPHPRPRVPAHAVAVAGVQTGIY 160
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
0.321 0.136 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,149,388
Number of Sequences: 62578
Number of extensions: 249159
Number of successful extensions: 510
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 498
Number of HSP's gapped (non-prelim): 9
length of query: 215
length of database: 14,973,337
effective HSP length: 95
effective length of query: 120
effective length of database: 9,028,427
effective search space: 1083411240
effective search space used: 1083411240
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: 49 (23.5 bits)