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= 025314
(254 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3VX8|B Chain B, Crystal Structure Of Arabidopsis Thaliana Atg7ntd-Atg3
Complex
pdb|3VX8|C Chain C, Crystal Structure Of Arabidopsis Thaliana Atg7ntd-Atg3
Complex
Length = 292
Score = 359 bits (921), Expect = e-99, Method: Compositional matrix adjust.
Identities = 176/229 (76%), Positives = 200/229 (87%), Gaps = 6/229 (2%)
Query: 26 AFKEKGVLSVSEFVLAGDNLVSKCPTWSWESGEPSKRKSYLPADKQFLITRNVPCLRRAA 85
AFKEKGVLSVSEFVLAGDNLVSKCPTWSWESG+ SKRK YLP+DKQFLITRNVPCLRRAA
Sbjct: 5 AFKEKGVLSVSEFVLAGDNLVSKCPTWSWESGDASKRKPYLPSDKQFLITRNVPCLRRAA 64
Query: 86 SVEEEYEGAGGEILVDNEDNDGWLATHGKPKAKCDEDEDDNLPSMEAVEISKNNNVRAIS 145
SV E+YE AGGE+LVD+EDNDGWLATHGKPK K E+DNLPSM+A++I++ N +++I
Sbjct: 65 SVAEDYEAAGGEVLVDDEDNDGWLATHGKPKDKG--KEEDNLPSMDALDINEKNTIQSIP 122
Query: 146 TYFGGXXXXXXDIPDMAEYNEPDSIIENETDPATLPSTYLVAHEPDDDNILRTRTYDISI 205
TYFGG DIPDM E++E D+++EN DPATL STYLVAHEPDDDNILRTRTYD+SI
Sbjct: 123 TYFGG--EEDDDIPDMEEFDEADNVVEN--DPATLQSTYLVAHEPDDDNILRTRTYDLSI 178
Query: 206 TYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKTVRGVLYVHL 254
TYDKYYQTPRVWLTGYDESRMLL+ EL++EDVSQDHARKTV + HL
Sbjct: 179 TYDKYYQTPRVWLTGYDESRMLLQPELVMEDVSQDHARKTVTIEDHPHL 227
>pdb|2DYT|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg3
Length = 312
Score = 75.9 bits (185), Expect = 2e-14, Method: Compositional matrix adjust.
Identities = 67/223 (30%), Positives = 103/223 (46%), Gaps = 31/223 (13%)
Query: 25 SAFKEKGVLSVSEFVLAGDNLVSKCPTWSW--ESGEPSKRKSYLPADKQFLITRNVPCLR 82
S F G ++ EFV AGD L PTW W ES + S R +LP +KQFLI R VPC +
Sbjct: 22 STFLTTGQITPEEFVQAGDYLCHMFPTWKWNEESSDISYR-DFLPKNKQFLIIRKVPCDK 80
Query: 83 RAASVEEEYEGAGGEILVDNEDNDGWLATHGKPKAKCDEDEDDNLPSMEAVEISKNNNVR 142
RA E+ E G ++++ DG DEDD L + S+ +V+
Sbjct: 81 RA---EQCVEVEGPDVIMKGFAEDG--------------DEDDVLEYIG----SETEHVQ 119
Query: 143 AISTYFGGXXXXXXDIPDMAEYNEPDSIIENETDPATLPSTYLVAHEPDDDNILRTRTYD 202
ST GG D + +E +E + + + A ++ + R YD
Sbjct: 120 --STPAGGTKDSSID-----DIDELIQDMEIKEEDENDDTEEFNAKGGLAKDMAQERYYD 172
Query: 203 ISITYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKT 245
+ I Y Y+ P++++ G++ + L E + ED+S D+ KT
Sbjct: 173 LYIAYSTSYRVPKMYIVGFNSNGSPLSPEQMFEDISADYRTKT 215
>pdb|4GSL|C Chain C, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
pdb|4GSL|D Chain D, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
Length = 312
Score = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 66/223 (29%), Positives = 102/223 (45%), Gaps = 31/223 (13%)
Query: 25 SAFKEKGVLSVSEFVLAGDNLVSKCPTWSW--ESGEPSKRKSYLPADKQFLITRNVPCLR 82
S F G ++ EFV AGD L PTW W ES + S R +LP +KQFLI R VP +
Sbjct: 22 STFLTTGQITPEEFVQAGDYLAHMFPTWKWNEESSDISYR-DFLPKNKQFLIIRKVPADK 80
Query: 83 RAASVEEEYEGAGGEILVDNEDNDGWLATHGKPKAKCDEDEDDNLPSMEAVEISKNNNVR 142
RA E+ E G ++++ DG DEDD L + S+ +V+
Sbjct: 81 RA---EQAVEVEGPDVIMKGFAEDG--------------DEDDVLEYIG----SETEHVQ 119
Query: 143 AISTYFGGXXXXXXDIPDMAEYNEPDSIIENETDPATLPSTYLVAHEPDDDNILRTRTYD 202
ST GG D + +E +E + + + A ++ + R YD
Sbjct: 120 --STPAGGTKDSSID-----DIDELIQDMEIKEEDENDDTEEFNAKGGLAKDMAQERYYD 172
Query: 203 ISITYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKT 245
+ I Y Y+ P++++ G++ + L E + ED+S D+ KT
Sbjct: 173 LYIAYSTSYRVPKMYIVGFNSNGSPLSPEQMFEDISADYRTKT 215
>pdb|2BUT|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R457s - Apo
pdb|2BUV|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R457s In Complex With
Protocatechuate
pdb|2BUU|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R457s In Complex With 4-
Nitrocatechol
pdb|2BUW|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R457s In Complex With 4-
Hydroxybenzoate
Length = 241
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 19/48 (39%)
Query: 35 VSEFVLAGDNLVSKCPTWSWESGEPSKRKSYLPADKQFLITRNVPCLR 82
+S+F GD L+ CP E +R DK I + C R
Sbjct: 176 ISQFYFEGDTLIDSCPILKTIPSEQQRRALIALEDKSNFIEADSRCYR 223
>pdb|1EO2|B Chain B, Crystal Structure Of Acinetobacter Sp. Adp1
Protocatechuate 3,4- Dioxygenase
pdb|1EO9|B Chain B, Crystal Structure Of Acinetobacter Sp. Adp1
Protocatechuate 3,4- Dioxygenase At Ph < 7.0
pdb|1EOA|B Chain B, Crystal Structure Of Acinetobacter Sp. Adp1
Protocatechuate 3,4- Dioxygenase In Complex With Cyanide
pdb|1EOB|B Chain B, Crystal Structure Of Acinetobacter Sp. Adp1
Protocatechuate 3,4- Dioxygenase In Complex With
3,4-Dihydroxybenzoate
pdb|1EOC|B Chain B, Crystal Structure Of Acinetobacter Sp. Adp1
Protocatechuate 3,4- Dioxygenase In Complex With
4-Nitrocatechol
pdb|2BUM|B Chain B, Crystal Structure Of Wild-Type Protocatechuate 3,4-
Dioxygenase From Acinetobacter Sp. Adp1
pdb|2BUQ|B Chain B, Crystal Structure Of Wild-Type Protocatechuate 3,4-
Dioxygenase From Acinetobacter Sp. Adp1 In Complex With
Catechol
pdb|2BUR|B Chain B, Crystal Structure Of Wild-Type Protocatechuate 3,4-
Dioxygenase From Acinetobacter Sp. Adp1 In Complex With
4- Hydroxybenzoate
pdb|2BUX|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R133h
pdb|2BUY|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R133h In Complex With
Catechol
pdb|2BUZ|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R133h In Complex With 4-
Nitrocatechol
pdb|2BV0|B Chain B, Crystal Structure Of Protocatechuate 3,4-Dioxygenase From
Acinetobacter Sp. Adp1 Mutant R133h In Complex With
Protocatechuate
Length = 241
Score = 27.7 bits (60), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 19/48 (39%)
Query: 35 VSEFVLAGDNLVSKCPTWSWESGEPSKRKSYLPADKQFLITRNVPCLR 82
+S+F GD L+ CP E +R DK I + C R
Sbjct: 176 ISQFYFEGDTLIDSCPILKTIPSEQQRRALIALEDKSNFIEADSRCYR 223
>pdb|3U5C|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
pdb|3J16|C Chain C, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 236
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 25/54 (46%)
Query: 46 VSKCPTWSWESGEPSKRKSYLPADKQFLITRNVPCLRRAASVEEEYEGAGGEIL 99
V K + + G P K+ LP + L+T+NV C R E + + G I+
Sbjct: 49 VFKISGGNDKQGFPMKQGVLLPTRIKLLLTKNVSCYRPRRDGERKRKSVRGAIV 102
>pdb|3QM3|A Chain A, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|B Chain B, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|C Chain C, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|D Chain D, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|E Chain E, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|F Chain F, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|G Chain G, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
pdb|3QM3|H Chain H, 1.85 Angstrom Resolution Crystal Structure Of
Fructose-Bisphosphate Aldolase (Fba) From Campylobacter
Jejuni
Length = 357
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 20/31 (64%), Gaps = 1/31 (3%)
Query: 208 DKYYQTPRVWLTGYDESRMLLKTELILEDVS 238
+K Y PRVWL +ES M+ + E+ ED++
Sbjct: 323 NKKYYDPRVWLRSGEES-MIKRLEIAFEDLN 352
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 0.132 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,092,289
Number of Sequences: 62578
Number of extensions: 343915
Number of successful extensions: 436
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 422
Number of HSP's gapped (non-prelim): 9
length of query: 254
length of database: 14,973,337
effective HSP length: 97
effective length of query: 157
effective length of database: 8,903,271
effective search space: 1397813547
effective search space used: 1397813547
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 50 (23.9 bits)