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= 044734
(130 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 = 145 bits (365), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 69/120 (57%), Positives = 86/120 (71%)
Query: 3 GDRFLARDLTIENKAGPEKYQAVALRVNADFAALFRCSFSGYQDTLYAHSFRQFYRECDV 62
G FLARD+T +N AG K+QAVALRV +D +A +RC YQD+LY HS RQF+ C +
Sbjct: 93 GAGFLARDITFQNTAGAAKHQAVALRVGSDLSAFYRCDILAYQDSLYVHSNRQFFINCFI 152
Query: 63 YGTIDYIFGNAAVVLQACNIVSRLPLPGQFTVITAQLKDDPNENTGISIQNCSILATEDL 122
GT+D+IFGNAAVVLQ C+I +R P GQ ++TAQ + DPN+NTGI IQ I AT DL
Sbjct: 153 AGTVDFIFGNAAVVLQDCDIHARRPGSGQKNMVTAQGRTDPNQNTGIVIQKSRIGATSDL 212
>pdb|1XG2|A Chain A, Crystal Structure Of The Complex Between Pectin
Methylesterase And Its Inhibitor Protein
Length = 317
Score = 141 bits (356), Expect = 8e-35, Method: Compositional matrix adjust.
Identities = 68/120 (56%), Positives = 86/120 (71%)
Query: 3 GDRFLARDLTIENKAGPEKYQAVALRVNADFAALFRCSFSGYQDTLYAHSFRQFYRECDV 62
G F+ +D+ I+N AGP K QAVALRV AD + + RC YQDTLYAHS RQFYR+ V
Sbjct: 89 GQGFILQDICIQNTAGPAKDQAVALRVGADMSVINRCRIDAYQDTLYAHSQRQFYRDSYV 148
Query: 63 YGTIDYIFGNAAVVLQACNIVSRLPLPGQFTVITAQLKDDPNENTGISIQNCSILATEDL 122
GT+D+IFGNAAVV Q C +V+R P Q ++TAQ + DPN+ TG SIQ C+I+A+ DL
Sbjct: 149 TGTVDFIFGNAAVVFQKCQLVARKPGKYQQNMVTAQGRTDPNQATGTSIQFCNIIASSDL 208
>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 = 59.7 bits (143), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 53/108 (49%), Gaps = 13/108 (12%)
Query: 23 QAVALRV--NADFAALFRCSFSGYQDTLYAHSFRQFYRECDVYGTIDYIFGNAAVVLQAC 80
QAVAL V + D A S GYQDTLY R F+ +C + GT+D+IFG+ + C
Sbjct: 129 QAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNC 188
Query: 81 NIVSRL-------PLPGQFTVITAQLKDDPNENTGISIQNCSILATED 121
++VSR + G T + + N+ G+ I N ++ D
Sbjct: 189 DLVSRYRADVKSGNVSGYLTAPSTNI----NQKYGLVITNSRVIRESD 232
>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 = 59.7 bits (143), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 53/108 (49%), Gaps = 13/108 (12%)
Query: 23 QAVALRV--NADFAALFRCSFSGYQDTLYAHSFRQFYRECDVYGTIDYIFGNAAVVLQAC 80
QAVAL V + D A S GYQDTLY R F+ +C + GT+D+IFG+ + C
Sbjct: 129 QAVALYVTKSGDRAYFKDVSLVGYQDTLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNC 188
Query: 81 NIVSRL-------PLPGQFTVITAQLKDDPNENTGISIQNCSILATED 121
++VSR + G T + + N+ G+ I N ++ D
Sbjct: 189 DLVSRYRADVKSGNVSGYLTAPSTNI----NQKYGLVITNSRVIRESD 232
>pdb|3UW0|A Chain A, Pectin Methylesterase From Yersinia Enterocolitica
Length = 364
Score = 58.2 bits (139), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 37/102 (36%), Positives = 52/102 (50%), Gaps = 17/102 (16%)
Query: 1 VSGDRFLARDLTIENK-----------AGPEKY---QAVALRV--NADFAALFRCSFSGY 44
V+ F A +LTI N P K QAVAL + N+D A GY
Sbjct: 119 VNAPNFTAENLTIRNDFDFPANKKKADTDPTKLKDTQAVALLLAENSDKARFKAVKLEGY 178
Query: 45 QDTLYAHS-FRQFYRECDVYGTIDYIFGNAAVVLQACNIVSR 85
QDTLY+ + R ++ +C++ G +D+IFG+ V CNIV+R
Sbjct: 179 QDTLYSKTGSRSYFSDCEISGHVDFIFGSGITVFDNCNIVAR 220
>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 = 56.2 bits (134), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 35/108 (32%), Positives = 52/108 (48%), Gaps = 13/108 (12%)
Query: 23 QAVALRV--NADFAALFRCSFSGYQDTLYAHSFRQFYRECDVYGTIDYIFGNAAVVLQAC 80
QAVAL V + D A S GYQ TLY R F+ +C + GT+D+IFG+ + C
Sbjct: 129 QAVALYVTKSGDRAYFKDVSLVGYQATLYVSGGRSFFSDCRISGTVDFIFGDGTALFNNC 188
Query: 81 NIVSRL-------PLPGQFTVITAQLKDDPNENTGISIQNCSILATED 121
++VSR + G T + + N+ G+ I N ++ D
Sbjct: 189 DLVSRYRADVKSGNVSGYLTAPSTNI----NQKYGLVITNSRVIRESD 232
>pdb|3FM2|A Chain A, Crystal Structure Of A Putative Heme-binding Protein
(ava_4353) From Anabaena Variabilis Atcc 29413 At 1.80
A Resolution
pdb|3FM2|B Chain B, Crystal Structure Of A Putative Heme-binding Protein
(ava_4353) From Anabaena Variabilis Atcc 29413 At 1.80
A Resolution
Length = 135
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 21/37 (56%)
Query: 50 AHSFRQFYRECDVYGTIDYIFGNAAVVLQACNIVSRL 86
+HS + F C+ GT+ I ++A VL+A + +L
Sbjct: 3 SHSLKDFLEACETLGTLRLIVTSSAAVLEARGKIEKL 39
>pdb|4ACL|A Chain A, 3d Structure Of Dotu From Francisella Novicida
pdb|4ACL|B Chain B, 3d Structure Of Dotu From Francisella Novicida
Length = 205
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 10/49 (20%)
Query: 22 YQAVALRVNADFAALFRCSFSGYQDTLYAHSFRQFYRECDVY---GTID 67
YQ ++L ++ DF + Y D +Y HSF + +E D + TID
Sbjct: 141 YQTISLILHNDF-------YGKYYDNIYNHSFLAYKKEIDKHIENSTID 182
>pdb|4ACK|A Chain A, 3d Structure Of Dotu From Francisella Novicida
pdb|4ACK|B Chain B, 3d Structure Of Dotu From Francisella Novicida
Length = 185
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 25/49 (51%), Gaps = 10/49 (20%)
Query: 22 YQAVALRVNADFAALFRCSFSGYQDTLYAHSFRQFYRECDVY---GTID 67
YQ ++L ++ DF + Y D +Y HSF + +E D + TID
Sbjct: 121 YQTISLILHNDF-------YGKYYDNIYNHSFLAYKKEIDKHIENSTID 162
>pdb|3GRH|A Chain A, Crystal Structure Of Escherichia Coli Ybhc
Length = 422
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 33/85 (38%), Gaps = 16/85 (18%)
Query: 9 RDLTIENKAGPE----KYQAVALRVNADFAALFRCSFSGYQDTLYA------------HS 52
++LTIEN G + AVALR + D + + G Q+T +
Sbjct: 206 QNLTIENTLGDSVDAGNHPAVALRTDGDQVQINNVNILGRQNTFFVTNSGVQNRLETNRQ 265
Query: 53 FRQFYRECDVYGTIDYIFGNAAVVL 77
R + G +D + G AVV
Sbjct: 266 PRTLVTNSYIEGDVDIVSGRGAVVF 290
>pdb|1D2K|A Chain A, C. Immitis Chitinase 1 At 2.2 Angstroms Resolution
pdb|1LL4|A Chain A, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|B Chain B, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|C Chain C, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
pdb|1LL4|D Chain D, Structure Of C. Immitis Chitinase 1 Complexed With
Allosamidin
Length = 392
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 2 SGDRFLARDLTIENKAGPEKYQAVALR---VNADFAALFRCSFSGYQDTLYAH 51
+G +FL LTI + AGP+ Y + L DF L FSG D + H
Sbjct: 167 NGKKFL---LTIASPAGPQNYNKLKLAEMDKYLDFWNLMAYDFSGSWDKVSGH 216
>pdb|1LL6|A Chain A, Structure Of The D169n Mutant Of C. Immitis Chitinase 1
pdb|1LL6|B Chain B, Structure Of The D169n Mutant Of C. Immitis Chitinase 1
pdb|1LL6|C Chain C, Structure Of The D169n Mutant Of C. Immitis Chitinase 1
pdb|1LL6|D Chain D, Structure Of The D169n Mutant Of C. Immitis Chitinase 1
Length = 392
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 2 SGDRFLARDLTIENKAGPEKYQAVALR---VNADFAALFRCSFSGYQDTLYAH 51
+G +FL LTI + AGP+ Y + L DF L FSG D + H
Sbjct: 167 NGKKFL---LTIASPAGPQNYNKLKLAEMDKYLDFWNLMAYDFSGSWDKVSGH 216
>pdb|1LL7|A Chain A, Structure Of The E171q Mutant Of C. Immitis Chitinase 1
pdb|1LL7|B Chain B, Structure Of The E171q Mutant Of C. Immitis Chitinase 1
Length = 392
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 19/53 (35%), Positives = 25/53 (47%), Gaps = 6/53 (11%)
Query: 2 SGDRFLARDLTIENKAGPEKYQAVALR---VNADFAALFRCSFSGYQDTLYAH 51
+G +FL LTI + AGP+ Y + L DF L FSG D + H
Sbjct: 167 NGKKFL---LTIASPAGPQNYNKLKLAEMDKYLDFWNLMAYDFSGSWDKVSGH 216
>pdb|2GAU|A Chain A, Crystal Structure Of Transcriptional Regulator, Crp/fnr
Family From Porphyromonas Gingivalis (apc80792),
Structural Genomics, Mcsg
Length = 232
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 11/36 (30%), Positives = 21/36 (58%)
Query: 83 VSRLPLPGQFTVITAQLKDDPNENTGISIQNCSILA 118
+SR+ PGQF + ++ +T I+++N +LA
Sbjct: 75 ISRIVKPGQFFGMRPYFAEETCSSTAIAVENSKVLA 110
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 0.136 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,592,104
Number of Sequences: 62578
Number of extensions: 123987
Number of successful extensions: 226
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 217
Number of HSP's gapped (non-prelim): 14
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
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: 45 (21.9 bits)