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= psy9259
(489 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1OE4|A Chain A, Xenopus Smug1, An Anti-mutator Uracil-dna Glycosylase
pdb|1OE4|B Chain B, Xenopus Smug1, An Anti-mutator Uracil-dna Glycosylase
pdb|1OE5|A Chain A, Xenopus Smug1, An Anti-Mutator Uracil-Dna Glycosylase
pdb|1OE5|B Chain B, Xenopus Smug1, An Anti-Mutator Uracil-Dna Glycosylase
pdb|1OE6|A Chain A, Xenopus Smug1, An Anti-Mutator Uracil-Dna Glycosylase
pdb|1OE6|B Chain B, Xenopus Smug1, An Anti-Mutator Uracil-Dna Glycosylase
Length = 247
Score = 231 bits (588), Expect = 8e-61, Method: Compositional matrix adjust.
Identities = 113/229 (49%), Positives = 152/229 (66%), Gaps = 5/229 (2%)
Query: 64 AEGVLNIEKQLIHELTNSNITYEFPVEYVYNPLDYAFELHSKYVYKYCNSKKKILFLGMN 123
A+ L +E +L L SN+ ++ PV+YVYNPL YA+ H YV YC SKK++LFLGMN
Sbjct: 5 ADSFLKVELEL--NLKLSNLVFQDPVQYVYNPLVYAWAPHENYVQTYCKSKKEVLFLGMN 62
Query: 124 PGPWGMVQCGIPFGEVKAVKGFLNIEGKVNQPEKFHKDRPIKGLDCPRSEISGKRLWELA 183
PGP+GM Q G+PFGEV V+ +L IEG V++PE H R I+G +CP+SE+SG R W L
Sbjct: 63 PGPFGMAQTGVPFGEVNHVRDWLQIEGPVSKPEVEHPKRRIRGFECPQSEVSGARFWSLF 122
Query: 184 SQLSDGKAADFFKHAYVHNYFPLAFVSKTATNITPAELKNKTTIEKLNSICDKSLSDIVK 243
L G+ FFKH +VHN+ PL F++ + N+TP +L K + L ICD++L V+
Sbjct: 123 KSLC-GQPETFFKHCFVHNHCPLIFMNHSGKNLTPTDLP-KAQRDTLLEICDEALCQAVR 180
Query: 244 HLGIETVIAIGKFAETRAEKALKSNRIFTVKVTSISHPSPRNPASNKNW 292
LG++ VI +G+F+E RA KAL + I V V I HPSPRNP +NK W
Sbjct: 181 VLGVKLVIGVGRFSEQRARKALMAEGI-DVTVKGIMHPSPRNPQANKGW 228
>pdb|3DH1|A Chain A, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|B Chain B, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|C Chain C, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
pdb|3DH1|D Chain D, Crystal Structure Of Human Trna-Specific Adenosine-34
Deaminase Subunit Adat2
Length = 189
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 40/96 (41%), Positives = 50/96 (52%), Gaps = 20/96 (20%)
Query: 338 RGMNEVNATKNATRHAEMVCIDHIVRQYPSTYRRVFESITVIVNVEPCIMCMAALLRVFE 397
+G NEVN TKNATRHAEMV ID ++ + C + VFE
Sbjct: 61 KGRNEVNQTKNATRHAEMVAIDQVL--------------------DWCRQSGKSPSEVFE 100
Query: 398 SITVIVNVEPCIMCMAALLSLNIRTIVFACSNDRFG 433
+ V VEPCIMC AAL + I +V+ C N+RFG
Sbjct: 101 HTVLYVTVEPCIMCAAALRLMKIPLVVYGCQNERFG 136
>pdb|1WWR|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|C Chain C, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
pdb|1WWR|D Chain D, Crystal Structure Of Trna Adenosine Deaminase Tada From
Aquifex Aeolicus
Length = 171
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 337 TRGMNEVNATKNATRHAEMVCIDHIVRQYPSTYRRVFESITVIVNVEPCIMCMAALL 393
++ N V K+ T HAEM+ I R+ + Y E + V +EPCIMC AL+
Sbjct: 57 SKAHNSVEELKDPTAHAEMLAIKEACRRLNTKY---LEGCELYVTLEPCIMCSYALV 110
>pdb|2NX8|A Chain A, The Crystal Structure Of The Trna-Specific Adenosine
Deaminase From Streptococcus Pyogenes
Length = 179
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 30/51 (58%), Gaps = 6/51 (11%)
Query: 400 TVIVNVEPCIMCMAALLSLNIRTIVFACSNDRFG-----YNVLGSDEKTNY 445
T+ V +EPC+MC A+ I +++ SN +FG Y +L +DE+ N+
Sbjct: 87 TLFVTIEPCVMCSGAIGLARIPHVIYGASNQKFGGVDSLYQIL-TDERLNH 136
>pdb|3OCQ|A Chain A, Crystal Structure Of Trna-Specific Adenosine Deaminase
From Salmonella Enterica
Length = 183
Score = 35.0 bits (79), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 400 TVIVNVEPCIMCMAALLSLNIRTIVFACSNDRFG-----YNVLGSDEKTNYIEIVENT 452
T+ V +EPC+MC A++ I +VF + + G +VL + +EI+E
Sbjct: 90 TLYVTLEPCVMCAGAMVHSRIGRVVFGARDAKTGAAGSLIDVLHHPGMNHRVEIIEGV 147
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 36/74 (48%), Gaps = 18/74 (24%)
Query: 323 NHRTLGFTVDERSKTRGMNEVNATKNATRHAEMVCIDH---IVRQYPSTYRRVFESITVI 379
NHR +G G N + T HAE++ + +++ Y R+ ++ T+
Sbjct: 48 NHRVIG---------EGWNRPIGRHDPTAHAEIMALRQGGLVLQNY-----RLLDT-TLY 92
Query: 380 VNVEPCIMCMAALL 393
V +EPC+MC A++
Sbjct: 93 VTLEPCVMCAGAMV 106
>pdb|1Z3A|A Chain A, Crystal Structure Of Trna Adenosine Deaminase Tada From
Escherichia Coli
pdb|1Z3A|B Chain B, Crystal Structure Of Trna Adenosine Deaminase Tada From
Escherichia Coli
Length = 168
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 28/57 (49%), Gaps = 5/57 (8%)
Query: 400 TVIVNVEPCIMCMAALLSLNIRTIVFACSNDRFG-----YNVLGSDEKTNYIEIVEN 451
T+ V +EPC+MC A++ I +VF + + G +VL + +EI E
Sbjct: 80 TLYVTLEPCVMCAGAMIHSRIGRVVFGARDAKTGAAGSLMDVLHHPGMNHRVEITEG 136
Score = 28.9 bits (63), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 29/57 (50%), Gaps = 7/57 (12%)
Query: 339 GMNEVNATKNATRHAEMVCIDH--IVRQYPSTYRRVFESITVIVNVEPCIMCMAALL 393
G N + T HAE++ + +V Q YR + T+ V +EPC+MC A++
Sbjct: 45 GWNRPIGRHDPTAHAEIMALRQGGLVMQ---NYRLI--DATLYVTLEPCVMCAGAMI 96
>pdb|2B3J|A Chain A, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|B Chain B, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|C Chain C, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
pdb|2B3J|D Chain D, Crystal Structure Of Staphylococcus Aureus Trna Adenosine
Deaminase, Tada, In Complex With Rna
Length = 159
Score = 33.1 bits (74), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 30/65 (46%), Gaps = 3/65 (4%)
Query: 329 FTVDERSKTRGMNEVNATKNATRHAEMVCIDHIVRQYPSTYRRVFESITVIVNVEPCIMC 388
T D+ R N + T HAE + I+ + S +R E T+ V +EPC+MC
Sbjct: 33 ITKDDEVIARAHNLRETLQQPTAHAEHIAIERAAKVLGS-WR--LEGCTLYVTLEPCVMC 89
Query: 389 MAALL 393
++
Sbjct: 90 AGTIV 94
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/38 (28%), Positives = 20/38 (52%)
Query: 396 FESITVIVNVEPCIMCMAALLSLNIRTIVFACSNDRFG 433
E T+ V +EPC+MC ++ I +V+ + + G
Sbjct: 74 LEGCTLYVTLEPCVMCAGTIVMSRIPRVVYGADDPKGG 111
>pdb|2G84|A Chain A, Cytidine And Deoxycytidylate Deaminase Zinc-Binding Region
From Nitrosomonas Europaea.
pdb|2G84|B Chain B, Cytidine And Deoxycytidylate Deaminase Zinc-Binding Region
From Nitrosomonas Europaea
Length = 197
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 401 VIVNVEPCIMCMAALLSLNIRTIVFACSNDRFGYNVLGSDE 441
++ + EPC+MC A++ +R++V A +D +G DE
Sbjct: 107 LVTSAEPCVMCFGAVIWSGVRSLVCAARSDDV--EAIGFDE 145
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
0.317 0.132 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,190,136
Number of Sequences: 62578
Number of extensions: 576624
Number of successful extensions: 1468
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 1447
Number of HSP's gapped (non-prelim): 22
length of query: 489
length of database: 14,973,337
effective HSP length: 103
effective length of query: 386
effective length of database: 8,527,803
effective search space: 3291731958
effective search space used: 3291731958
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)