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= 023061
(288 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 = 443 bits (1139), Expect = e-125, Method: Compositional matrix adjust.
Identities = 213/263 (80%), Positives = 238/263 (90%), Gaps = 6/263 (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 SVAEDYEAAGGEVLVDDEDNDGWLATHGKPKDKGKEE--DNLPSMDALDINEKNTIQSIP 122
Query: 146 TYFGGXXXXXXDIPDMAEYNEPDSIIENETDPATLPSTYLVAHEPDDDNILRTRTYDISI 205
TYFGG DIPDM E++E D+++EN DPATL STYLVAHEPDDDNILRTRTYD+SI
Sbjct: 123 TYFGGEEDD--DIPDMEEFDEADNVVEN--DPATLQSTYLVAHEPDDDNILRTRTYDLSI 178
Query: 206 TYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKTVTIEDHPHLTGKHASIHPCR 265
TYDKYYQTPRVWLTGYDESRMLL+ EL++EDVSQDHARKTVTIEDHPHL GKHAS+HPCR
Sbjct: 179 TYDKYYQTPRVWLTGYDESRMLLQPELVMEDVSQDHARKTVTIEDHPHLPGKHASVHPCR 238
Query: 266 HGAVMKKIIDVLVSRGVEPEVDK 288
HGAVMKKIIDVL+SRGVEPEVDK
Sbjct: 239 HGAVMKKIIDVLMSRGVEPEVDK 261
>pdb|2DYT|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg3
Length = 312
Score = 101 bits (251), Expect = 5e-22, Method: Compositional matrix adjust.
Identities = 81/255 (31%), Positives = 120/255 (47%), Gaps = 33/255 (12%)
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 ISITYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKTVTIEDHPHLTGK--HAS 260
+ I Y Y+ P++++ G++ + L E + ED+S D+ KT TIE P S
Sbjct: 173 LYIAYSTSYRVPKMYIVGFNSNGSPLSPEQMFEDISADYRTKTATIEKLPFYKNSVLSVS 232
Query: 261 IHPCRHGAVMKKIID 275
IHPC+H VMK ++D
Sbjct: 233 IHPCKHANVMKILLD 247
>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 = 99.0 bits (245), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 80/255 (31%), Positives = 119/255 (46%), Gaps = 33/255 (12%)
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 ISITYDKYYQTPRVWLTGYDESRMLLKTELILEDVSQDHARKTVTIEDHPHLTGK--HAS 260
+ I Y Y+ P++++ G++ + L E + ED+S D+ KT TIE P S
Sbjct: 173 LYIAYSTSYRVPKMYIVGFNSNGSPLSPEQMFEDISADYRTKTATIEKLPFYKNSVLSVS 232
Query: 261 IHPCRHGAVMKKIID 275
IHPC+H VMK ++D
Sbjct: 233 IHPCKHANVMKILLD 247
>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 = 8.3, 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|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 = 27.7 bits (60), Expect = 8.3, 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
>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 = 8.5, 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 = 9.1, 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
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 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,293,406
Number of Sequences: 62578
Number of extensions: 393738
Number of successful extensions: 520
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 503
Number of HSP's gapped (non-prelim): 10
length of query: 288
length of database: 14,973,337
effective HSP length: 98
effective length of query: 190
effective length of database: 8,840,693
effective search space: 1679731670
effective search space used: 1679731670
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: 51 (24.3 bits)