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= 006372
(648 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3M4X|A Chain A, Structure Of A Ribosomal Methyltransferase
Length = 456
Score = 84.3 bits (207), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 57/213 (26%), Positives = 93/213 (43%), Gaps = 44/213 (20%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+CAAPG K+ QL + G G+++ N++ +R +L +R +N IVTNH
Sbjct: 112 LCAAPGGKSTQL-----AAQXKG---KGLLVTNEIFPKRAKILSENIERWGVSNAIVTNH 163
Query: 61 EAQ----HFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWR 116
HF G FDR++ D PCSG+G RK P+ +
Sbjct: 164 APAELVPHFSG------------------------FFDRIVVDAPCSGEGXFRKDPNAIK 199
Query: 117 KWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVEL 176
+W Q +I I LK G+++YSTC+ P ENE +++ ++ ++E
Sbjct: 200 EWTEESPLYCQKRQQEILSSAIKXLKNKGQLIYSTCTFAPEENEEIISWLVENYPVTIEE 259
Query: 177 VDVSNEVPQLIHRPG--------LRKWKVRDKG 201
+ ++ V G +R W +D+G
Sbjct: 260 IPLTQSVSSGRSEWGSVAGLEKTIRIWPHKDQG 292
>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 = 79.7 bits (195), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 56/184 (30%), Positives = 86/184 (46%), Gaps = 28/184 (15%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+ AAPGSKT Q I + N GA ++AN+ R +L R +N+ +T
Sbjct: 124 VAAAPGSKTTQ---ISARXNNEGA-----ILANEFSASRVKVLHANISRCGISNVALT-- 173
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
HF G + F +A + FD +L D PCSG+G +RK PD + W+
Sbjct: 174 ---HFDG----RVFGAAVPE-----------XFDAILLDAPCSGEGVVRKDPDALKNWSP 215
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELVDVS 180
+ + Q ++ L+ GG +VYSTC++N ENEAV + +VE + +
Sbjct: 216 ESNQEIAATQRELIDSAFHALRPGGTLVYSTCTLNQEENEAVCLWLKETYPDAVEFLPLG 275
Query: 181 NEVP 184
+ P
Sbjct: 276 DLFP 279
>pdb|1IXK|A Chain A, Crystal Structure Analysis Of Methyltransferase Homolog
Protein From Pyrococcus Horikoshii
Length = 315
Score = 75.1 bits (183), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 58/193 (30%), Positives = 89/193 (46%), Gaps = 35/193 (18%)
Query: 2 CAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNHE 61
AAPG KT L ++ +G++ A D+D R R+ N+I+ +
Sbjct: 126 AAAPGGKTSYLAQLXRN--------DGVIYAFDVDENRLRETRLNLSRLGVLNVILFHSS 177
Query: 62 AQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVG 121
+ H E N+ FD++L D PC+G GT+ K P+ RKWN
Sbjct: 178 SLHI------------------GELNVE---FDKILLDAPCTGSGTIHKNPE--RKWNRT 214
Query: 122 LGN--GLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELVDV 179
+ LQ ++ +G+ +LK GG +VYSTCS+ P ENE V+ L + VEL+ +
Sbjct: 215 XDDIKFCQGLQXRLLEKGLEVLKPGGILVYSTCSLEPEENEFVIQWALDNFD--VELLPL 272
Query: 180 SNEVPQLIHRPGL 192
P L + G+
Sbjct: 273 KYGEPALTNPFGI 285
>pdb|3M6W|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212 In Complex
With S-Adenosyl-L- Methionine
Length = 464
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 74/168 (44%), Gaps = 29/168 (17%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+ AAPG KT H + G G+++AN++D +R L+ +R A L VT
Sbjct: 108 LAAAPGGKT------THLAARMGG--KGLLLANEVDGKRVRGLLENVER-WGAPLAVTQA 158
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
+ + F + F RVL D PCSG+G RK + R W
Sbjct: 159 PPRAL-----AEAFGT---------------YFHRVLLDAPCSGEGMFRKDREAARHWGP 198
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILR 168
+ +Q + + LL GG +VYSTC+ P ENE VVA L+
Sbjct: 199 SAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLK 246
>pdb|3M6U|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6U|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group 43
pdb|3M6V|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
pdb|3M6V|B Chain B, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P2 In Complex With
S-Adenosyl-L- Methionine
Length = 464
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 74/168 (44%), Gaps = 29/168 (17%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+ AAPG KT H + G G+++AN++D +R L+ +R A L VT
Sbjct: 108 LAAAPGGKT------THLAARMGG--KGLLLANEVDGKRVRGLLENVER-WGAPLAVTQA 158
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
+ + F + F RVL D PCSG+G RK + R W
Sbjct: 159 PPRAL-----AEAFGT---------------YFHRVLLDAPCSGEGMFRKDREAARHWGP 198
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILR 168
+ +Q + + LL GG +VYSTC+ P ENE VVA L+
Sbjct: 199 SAPKRMAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLK 246
>pdb|3M6X|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212
Length = 464
Score = 73.2 bits (178), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 52/168 (30%), Positives = 73/168 (43%), Gaps = 29/168 (17%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+ AAPG KT H + G G+++AN++D +R L+ +R A L VT
Sbjct: 108 LAAAPGGKT------THLAARXGG--KGLLLANEVDGKRVRGLLENVERWG-APLAVTQA 158
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
+ + F + F RVL D PCSG+G RK + R W
Sbjct: 159 PPRAL-----AEAFGT---------------YFHRVLLDAPCSGEGXFRKDREAARHWGP 198
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILR 168
+Q + + LL GG +VYSTC+ P ENE VVA L+
Sbjct: 199 SAPKRXAEVQKALLAQASRLLGPGGVLVYSTCTFAPEENEGVVAHFLK 246
>pdb|1SQF|A Chain A, The Crystal Structure Of E. Coli Fmu Binary Complex With
S- Adenosylmethionine At 2.1 A Resolution
pdb|1SQG|A Chain A, The Crystal Structure Of The E. Coli Fmu Apoenzyme At 1.65
A Resolution
Length = 429
Score = 72.4 bits (176), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 53/170 (31%), Positives = 77/170 (45%), Gaps = 31/170 (18%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+CAAPG KT +LE+ P V+A D+D QR + + KR+
Sbjct: 253 LCAAPGGKTTHILEVA---------PEAQVVAVDIDEQRLSRVYDNLKRL---------- 293
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDI-WRKWN 119
G +A + G G+ FDR+L D PCS G +R+ PDI W + +
Sbjct: 294 ------GMKA----TVKQGDGRYPSQWCGEQQFDRILLDAPCSATGVIRRHPDIKWLRRD 343
Query: 120 VGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRK 169
+ L LQ +I LK GG +VY+TCS+ P EN + L++
Sbjct: 344 RDIPE-LAQLQSEILDAIWPHLKTGGTLVYATCSVLPEENSLQIKAFLQR 392
>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 = 68.6 bits (166), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 58/199 (29%), Positives = 92/199 (46%), Gaps = 31/199 (15%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
MCAAPG KT L +++ G ++A ++ R L RM N I+ N
Sbjct: 90 MCAAPGGKTTHLAQLMKNK--------GTIVAVEISKTRTKALKSNINRMGVLNTIIINA 141
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
+ + + D +++E + FD++L D PCSG+ K ++ + ++
Sbjct: 142 DMRKY------------KDYLLKNE-----IFFDKILLDAPCSGNIIKDKNRNVSEE-DI 183
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELVDV- 179
+ + I GI LLK G +VYSTCSM ENE V+ IL+K VEL+ +
Sbjct: 184 KYCSLRQKELIDI---GIDLLKKDGELVYSTCSMEVEENEEVIKYILQK-RNDVELIIIK 239
Query: 180 SNEVPQLIHRPGLRKWKVR 198
+NE + + G K +R
Sbjct: 240 ANEFKGINIKEGYIKGTLR 258
>pdb|2YXL|A Chain A, Crystal Structure Of Ph0851
Length = 450
Score = 63.5 bits (153), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 71/160 (44%), Gaps = 27/160 (16%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+ AAPG KT L E++ G + A D+D R L KRM
Sbjct: 266 LAAAPGGKTTHLAELMKN--------KGKIYAFDVDKMRMKRLKDFVKRM---------- 307
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNV 120
G + K + K E +G+ + D+VL D PC+ GT+ K P++ +
Sbjct: 308 ------GIKIVKPLVKDARKAPEI---IGEEVADKVLLDAPCTSSGTIGKNPELRWRLRE 358
Query: 121 GLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENE 160
N + LQ ++ L+K GGR++Y+TCS+ ENE
Sbjct: 359 DKINEMSQLQRELLESAARLVKPGGRLLYTTCSIFKEENE 398
>pdb|4FZV|A Chain A, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
Complex
Length = 359
Score = 54.7 bits (130), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 53/179 (29%), Positives = 81/179 (45%), Gaps = 32/179 (17%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+CAAPG KT LL+ G N + ANDL R+ I+ ++
Sbjct: 155 LCAAPGGKTLALLQT-------GCCRN--LAANDLS----------PSRIARLQKILHSY 195
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGD--GTLRKAPDIWRKW 118
+ + S K E E + +DRVL DVPC+ D + +I+++
Sbjct: 196 VPEEIRDGNQVRVTSWDGRKWGELEGDT----YDRVLVDVPCTTDRHSLHEEENNIFKRS 251
Query: 119 NVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELV 177
L LQVQ+ G+ K GG +VYSTCS++ ++NE VV +G++EL+
Sbjct: 252 RKKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHLQNEYVV-------QGAIELL 303
>pdb|4FP9|A Chain A, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|C Chain C, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|D Chain D, Human Mterf4-Nsun4 Protein Complex
pdb|4FP9|F Chain F, Human Mterf4-Nsun4 Protein Complex
Length = 360
Score = 54.3 bits (129), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 53/179 (29%), Positives = 81/179 (45%), Gaps = 32/179 (17%)
Query: 1 MCAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNH 60
+CAAPG KT LL+ G N + ANDL R+ I+ ++
Sbjct: 156 LCAAPGGKTLALLQT-------GCCRN--LAANDLS----------PSRIARLQKILHSY 196
Query: 61 EAQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGD--GTLRKAPDIWRKW 118
+ + S K E E + +DRVL DVPC+ D + +I+++
Sbjct: 197 VPEEIRDGNQVRVTSWDGRKWGELEGDT----YDRVLVDVPCTTDRHSLHEEENNIFKRS 252
Query: 119 NVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELV 177
L LQVQ+ G+ K GG +VYSTCS++ ++NE VV +G++EL+
Sbjct: 253 RKKERQILPVLQVQLLAAGLLATKPGGHVVYSTCSLSHLQNEYVV-------QGAIELL 304
>pdb|2B9E|A Chain A, Human Nsun5 Protein
Length = 309
Score = 38.1 bits (87), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 49/191 (25%), Positives = 77/191 (40%), Gaps = 34/191 (17%)
Query: 2 CAAPGSKTFQLLEIIHQSTNPGALPNGMVIANDLDVQRCNLLIHQTKRMCTANLIVTNHE 61
CAAPG+KT L ++ G + A DLD +R L + A +
Sbjct: 110 CAAPGNKTSHLAALLKN--------QGKIFAFDLDAKR---LASMATLLARAGVSCCE-- 156
Query: 62 AQHFPGCRANKNFSSASDKGIESESNMGQLLFDRVLCDVPCSGDGTLRKA---PDIWRKW 118
A ++F + S S+ ++ + +L D CSG G + P
Sbjct: 157 -------LAEEDFLAVS----PSDPRYHEVHY--ILLDPSCSGSGMPSRQLEEPGAGTPS 203
Query: 119 NVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTCSMNPVENEAVVAEILRKCEGSVELVD 178
V L + L Q + ++ + R+VYSTCS+ ENE VV + L++ G+ L
Sbjct: 204 PVRL-HALAGFQQRALCHALTFPSLQ-RLVYSTCSLCQEENEDVVRDALQQNPGAFRLAP 261
Query: 179 VSNEVPQLIHR 189
+P HR
Sbjct: 262 A---LPAWPHR 269
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
0.315 0.133 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,054,032
Number of Sequences: 62578
Number of extensions: 794935
Number of successful extensions: 1787
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 1756
Number of HSP's gapped (non-prelim): 19
length of query: 648
length of database: 14,973,337
effective HSP length: 105
effective length of query: 543
effective length of database: 8,402,647
effective search space: 4562637321
effective search space used: 4562637321
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: 55 (25.8 bits)