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= 042008
(208 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1X90|A Chain A, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
pdb|1X90|B Chain B, Crystal Structure Of Mutant Form B Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 152
Score = 40.8 bits (94), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 14/154 (9%)
Query: 50 IKTSCNSTLYPALCYKYLSSHASTIKTDSVKLCNTALTVNLKAANKTSALVTSMAKKGGL 109
+ T C+ TL P+ C K+L++ ++ + L T L A +T + S+ GG+
Sbjct: 7 MSTICDKTLNPSFCLKFLNTKFASANLQA--LAKTTLDSTQARATQTLKKLQSII-DGGV 63
Query: 110 RPAEKAVIEDCNEEIDDCVDELRKASNVLDNLRDALNKEDQMADIKTWVSAAMTDEDTCM 169
P K CVDE A L+ + L D M + VSAA+ DTC+
Sbjct: 64 DPRSKLAYR-------SCVDEYESAIGNLEEAFEHLASGDGMG-MNMKVSAALDGADTCL 115
Query: 170 DEFEE-NNVRESVKNKIK--KSIVDLRKITSNSL 200
D+ + +V SV N K K++ + + SN L
Sbjct: 116 DDVKRLRSVDSSVVNNSKTIKNLCGIALVISNML 149
>pdb|1X91|A Chain A, Crystal Structure Of Mutant Form A Of A Pectin
Methylesterase Inhibitor From Arabidopsis
Length = 153
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 14/154 (9%)
Query: 50 IKTSCNSTLYPALCYKYLSSHASTIKTDSVKLCNTALTVNLKAANKTSALVTSMAKKGGL 109
+ T C+ TL P+ C K+L++ ++ + L T L A +T + S+ GG+
Sbjct: 8 MSTICDKTLNPSFCLKFLNTKFASANLQA--LAKTTLDSTQARATQTLKKLQSII-DGGV 64
Query: 110 RPAEKAVIEDCNEEIDDCVDELRKASNVLDNLRDALNKEDQMADIKTWVSAAMTDEDTCM 169
P K CVDE A L+ + L D M + VSAA+ DTC+
Sbjct: 65 DPRSKLAYR-------SCVDEYESAIGNLEEAFEHLASGDGMG-MNMKVSAALDGADTCL 116
Query: 170 DEFEE-NNVRESVKNKIK--KSIVDLRKITSNSL 200
D+ + +V SV N K K++ + + SN L
Sbjct: 117 DDVKRLRSVDSSVVNNSKTIKNLCGIALVISNML 150
>pdb|1X8Z|A Chain A, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|B Chain B, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
pdb|1X8Z|C Chain C, Crystal Structure Of A Pectin Methylesterase Inhibitor
From Arabidopsis Thaliana
Length = 153
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 69/154 (44%), Gaps = 14/154 (9%)
Query: 50 IKTSCNSTLYPALCYKYLSSHASTIKTDSVKLCNTALTVNLKAANKTSALVTSMAKKGGL 109
+ T C+ TL P+ C K+L++ ++ + L T L A +T + S+ GG+
Sbjct: 8 MSTICDKTLNPSFCLKFLNTKFASPNLQA--LAKTTLDSTQARATQTLKKLQSII-DGGV 64
Query: 110 RPAEKAVIEDCNEEIDDCVDELRKASNVLDNLRDALNKEDQMADIKTWVSAAMTDEDTCM 169
P K CVDE A L+ + L D M + VSAA+ DTC+
Sbjct: 65 DPRSKLAYR-------SCVDEYESAIGNLEEAFEHLASGDGMG-MNMKVSAALDGADTCL 116
Query: 170 DEFEE-NNVRESVKNKIK--KSIVDLRKITSNSL 200
D+ + +V SV N K K++ + + SN L
Sbjct: 117 DDVKRLRSVDSSVVNNSKTIKNLCGIALVISNML 150
>pdb|3BEZ|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
pdb|3BEZ|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Semet Crystals
Length = 593
Score = 27.7 bits (60), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 133 KASNVLDNLRD---ALNKEDQMADIKTWVSAAMTDEDTCMDEFEEN 175
KA+ ++D+L D A+ K ++A +K W DE T D+ +N
Sbjct: 493 KANGLVDSLGDFDDAVAKAAELAKVKQWHLEYYVDEPTFFDKVXDN 538
>pdb|3BF0|A Chain A, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|B Chain B, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|C Chain C, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
pdb|3BF0|D Chain D, Crystal Structure Of Escherichia Coli Signal Peptide
Peptidase (Sppa), Native Crystals
Length = 593
Score = 26.9 bits (58), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 3/46 (6%)
Query: 133 KASNVLDNLRD---ALNKEDQMADIKTWVSAAMTDEDTCMDEFEEN 175
KA+ ++D+L D A+ K ++A +K W DE T D+ +N
Sbjct: 493 KANGLVDSLGDFDDAVAKAAELAKVKQWHLEYYVDEPTFFDKVMDN 538
>pdb|2P02|A Chain A, Crystal Structure Of The Alpha Subunit Of Human S-
Adenosylmethionine Synthetase 2
Length = 396
Score = 26.9 bits (58), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 12/47 (25%), Positives = 28/47 (59%), Gaps = 5/47 (10%)
Query: 154 IKTWVSAAMTDEDTCMDEFEENNVRESVKNKIKKSIVDLRKITSNSL 200
+ T V + DE+ C+DE +R+++K K+ K++V + + +++
Sbjct: 201 VHTIVISVQHDEEVCLDE-----MRDALKEKVIKAVVPAKYLDEDTI 242
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
0.313 0.126 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,842,371
Number of Sequences: 62578
Number of extensions: 163996
Number of successful extensions: 406
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 401
Number of HSP's gapped (non-prelim): 8
length of query: 208
length of database: 14,973,337
effective HSP length: 94
effective length of query: 114
effective length of database: 9,091,005
effective search space: 1036374570
effective search space used: 1036374570
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)