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= psy11559
(189 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2FRX|A Chain A, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|B Chain B, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|C Chain C, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
pdb|2FRX|D Chain D, Crystal Structure Of Yebu, A M5c Rna Methyltransferase
From E.Coli
Length = 479
Score = 64.7 bits (156), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 53/167 (31%), Positives = 70/167 (41%), Gaps = 28/167 (16%)
Query: 3 FLEASETQRPL--TIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIY---NSTVP 57
FL A QRPL +IR NTLK D Q G L PI W + G I +P
Sbjct: 29 FLAA--CQRPLRRSIRVNTLKISVADFLQLTAPYGWTLTPI-PWCEEGFWIERDNEDALP 85
Query: 58 IGATPEYLGGHYILQGASKYW------------------ICAPHRXXXXXXXXXXNTGVL 99
+G+T E+L G + +Q AS AP N G +
Sbjct: 86 LGSTAEHLSGLFYIQEASSXLPVAALFADGNAPQRVXDVAAAPGSKTTQISARXNNEGAI 145
Query: 100 FANDVSKERSKAIVGNFHRLGVINSVVTCLDGRQYGK--PEENEAVV 144
AN+ S R K + N R G+ N +T DGR +G PE +A++
Sbjct: 146 LANEFSASRVKVLHANISRCGISNVALTHFDGRVFGAAVPEXFDAIL 192
>pdb|3A4T|A Chain A, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3A4T|B Chain B, Crystal Structure Of Atrm4 From M.Jannaschii With
Sinefungin
pdb|3AJD|A Chain A, Crystal Structure Of Atrm4
Length = 274
Score = 63.9 bits (154), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 43/136 (31%), Positives = 64/136 (47%), Gaps = 18/136 (13%)
Query: 15 IRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEYLGGHYILQGA 74
IR NTLK L + L N+GV L+ + + S IG+TPEYL G+Y+ Q
Sbjct: 13 IRVNTLKINPEVLKKRLENKGVVLE--KTFLDYAFEVKKSPFSIGSTPEYLFGYYMPQSI 70
Query: 75 SKYW---------------ICA-PHRXXXXXXXXXXNTGVLFANDVSKERSKAIVGNFHR 118
S +CA P N G + A ++SK R+KA+ N +R
Sbjct: 71 SSMIPPIVLNPREDDFILDMCAAPGGKTTHLAQLMKNKGTIVAVEISKTRTKALKSNINR 130
Query: 119 LGVINSVVTCLDGRQY 134
+GV+N+++ D R+Y
Sbjct: 131 MGVLNTIIINADMRKY 146
>pdb|1IXK|A Chain A, Crystal Structure Analysis Of Methyltransferase Homolog
Protein From Pyrococcus Horikoshii
Length = 315
Score = 56.6 bits (135), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 58/138 (42%), Gaps = 17/138 (12%)
Query: 5 EASETQRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWSKVGLVIYNSTVPIGATPEY 64
EA E P R NTLK +DL + L +G + W+K G + I +TPE+
Sbjct: 37 EAXEKPLPRCFRVNTLKISVQDLVKRLNKKGFQFKRV-PWAKEGFCLTREPFSITSTPEF 95
Query: 65 LGGHYILQGASKYW----------------ICAPHRXXXXXXXXXXNTGVLFANDVSKER 108
L G +Q AS + AP N GV++A DV + R
Sbjct: 96 LTGLIYIQEASSXYPPVALDPKPGEIVADXAAAPGGKTSYLAQLXRNDGVIYAFDVDENR 155
Query: 109 SKAIVGNFHRLGVINSVV 126
+ N RLGV+N ++
Sbjct: 156 LRETRLNLSRLGVLNVIL 173
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%), Gaps = 2/34 (5%)
Query: 136 KPEENEAVVNYALRKRDVKLVPTGLDFGTEGFVN 169
+PEENE V+ +AL DV+L+P L +G N
Sbjct: 250 EPEENEFVIQWALDNFDVELLP--LKYGEPALTN 281
>pdb|1EX2|A Chain A, Crystal Structure Of Bacillus Subtilis Maf Protein
pdb|1EX2|B Chain B, Crystal Structure Of Bacillus Subtilis Maf Protein
pdb|1EXC|A Chain A, Crystal Structure Of B. Subtilis Maf Protein Complexed
With D-(Utp)
pdb|1EXC|B Chain B, Crystal Structure Of B. Subtilis Maf Protein Complexed
With D-(Utp)
Length = 189
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 104 VSKERSKAIVGNFHRLGVI--NSVVTCLDGRQYGKPEENEAVVNYALR 149
++K+++KA V + H ++ + CLDG GKP++ E + R
Sbjct: 49 LAKQKAKA-VADLHPHAIVIGADTMVCLDGECLGKPQDQEEAASMLRR 95
>pdb|4HEB|A Chain A, The Crystal Structure Of Maf Protein Of Bacillus Subtilis
pdb|4HEB|B Chain B, The Crystal Structure Of Maf Protein Of Bacillus Subtilis
Length = 210
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 104 VSKERSKAIVGNFHRLGVI--NSVVTCLDGRQYGKPEENEAVVNYALR 149
++K+++KA V + H ++ + CLDG GKP++ E + R
Sbjct: 70 LAKQKAKA-VADLHPHAIVIGADTMVCLDGECLGKPQDQEEAASMLRR 116
>pdb|3M4X|A Chain A, Structure Of A Ribosomal Methyltransferase
Length = 456
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 97 GVLFANDVSKERSKAIVGNFHRLGVINSVVT 127
G+L N++ +R+K + N R GV N++VT
Sbjct: 131 GLLVTNEIFPKRAKILSENIERWGVSNAIVT 161
>pdb|3QX3|A Chain A, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
pdb|3QX3|B Chain B, Human Topoisomerase Iibeta In Complex With Dna And
Etoposide
Length = 803
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 18/30 (60%), Gaps = 1/30 (3%)
Query: 19 TLKTR-RRDLAQALVNRGVNLDPIGKWSKV 47
T++ R ++DL Q LV RG DP+ W +
Sbjct: 662 TIENRSKKDLIQMLVQRGYESDPVKAWKEA 691
>pdb|2PL2|A Chain A, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
pdb|2PL2|B Chain B, Crystal Structure Of Ttc0263: A Thermophilic Tpr Protein
In Thermus Thermophilus Hb27
Length = 217
Score = 26.9 bits (58), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 31/77 (40%), Gaps = 12/77 (15%)
Query: 10 QRPLTIRTNTLKTRRRDLAQALVNRGVNLDPIGKWS---------KVGLV---IYNSTVP 57
Q PL + R D A L R + +P + K+GLV + N
Sbjct: 6 QNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTL 65
Query: 58 IGATPEYLGGHYILQGA 74
+ TP YLGG+ +L A
Sbjct: 66 VARTPRYLGGYMVLSEA 82
>pdb|1DL5|A Chain A, Protein-L-Isoaspartate O-Methyltransferase
pdb|1DL5|B Chain B, Protein-L-Isoaspartate O-Methyltransferase
Length = 317
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 10/65 (15%)
Query: 97 GVLFANDVSKERSKAIVGNFHRLGVINSVVTCLDGRQYGKPEENEAVVNYALRKRDVKLV 156
G++ + + S++ + N RLG+ N + C DG YG PE DV V
Sbjct: 101 GLVVSVEYSRKICEIAKRNVERLGIENVIFVCGDG-YYGVPE---------FSPYDVIFV 150
Query: 157 PTGLD 161
G+D
Sbjct: 151 TVGVD 155
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 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,365,000
Number of Sequences: 62578
Number of extensions: 211802
Number of successful extensions: 415
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 400
Number of HSP's gapped (non-prelim): 14
length of query: 189
length of database: 14,973,337
effective HSP length: 93
effective length of query: 96
effective length of database: 9,153,583
effective search space: 878743968
effective search space used: 878743968
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)