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= 007036
(620 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 = 74.7 bits (182), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 47/185 (25%), Positives = 80/185 (43%), Gaps = 36/185 (19%)
Query: 1 MVIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQ----HFPGCRANKNFSSASDKGIES 56
+++ N++ +R +L +R +N IVTNH HF G
Sbjct: 132 LLVTNEIFPKRAKILSENIERWGVSNAIVTNHAPAELVPHFSG----------------- 174
Query: 57 ESNMGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVG 116
FDR++ D PCSG+G RK P+ ++W Q +I I LK
Sbjct: 175 -------FFDRIVVDAPCSGEGXFRKDPNAIKEWTEESPLYCQKRQQEILSSAIKXLKNK 227
Query: 117 GRIVYSTCSMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHRPG--------LRKWK 168
G+++YSTC+ P ENE +++ ++ ++E + ++ V G +R W
Sbjct: 228 GQLIYSTCTFAPEENEEIISWLVENYPVTIEEIPLTQSVSSGRSEWGSVAGLEKTIRIWP 287
Query: 169 VRDKG 173
+D+G
Sbjct: 288 HKDQG 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 = 70.5 bits (171), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 44/155 (28%), Positives = 72/155 (46%), Gaps = 20/155 (12%)
Query: 2 VIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMG 61
++AN+ R +L R +N+ +T HF G + F +A +
Sbjct: 145 ILANEFSASRVKVLHANISRCGISNVALT-----HFDG----RVFGAAVPE--------- 186
Query: 62 QLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVY 121
FD +L D PCSG+G +RK PD + W+ + + Q ++ L+ GG +VY
Sbjct: 187 --XFDAILLDAPCSGEGVVRKDPDALKNWSPESNQEIAATQRELIDSAFHALRPGGTLVY 244
Query: 122 STCSMNPVENEAVVAEILRKCEGSVELVDVSNEVP 156
STC++N ENEAV + +VE + + + P
Sbjct: 245 STCTLNQEENEAVCLWLKETYPDAVEFLPLGDLFP 279
>pdb|1IXK|A Chain A, Crystal Structure Analysis Of Methyltransferase Homolog
Protein From Pyrococcus Horikoshii
Length = 315
Score = 68.9 bits (167), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 40/102 (39%), Positives = 59/102 (57%), Gaps = 6/102 (5%)
Query: 65 FDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGN--GLHSLQVQIAMRGISLLKVGGRIVYS 122
FD++L D PC+G GT+ K P+ RKWN + LQ ++ +G+ +LK GG +VYS
Sbjct: 188 FDKILLDAPCTGSGTIHKNPE--RKWNRTXDDIKFCQGLQXRLLEKGLEVLKPGGILVYS 245
Query: 123 TCSMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHRPGL 164
TCS+ P ENE V+ L + VEL+ + P L + G+
Sbjct: 246 TCSLEPEENEFVIQWALDNFD--VELLPLKYGEPALTNPFGI 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 = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 43/140 (30%), Positives = 63/140 (45%), Gaps = 21/140 (15%)
Query: 1 MVIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNM 60
+++AN++D +R L+ +R A L VT + + F +
Sbjct: 128 LLLANEVDGKRVRGLLENVER-WGAPLAVTQAPPRAL-----AEAFGT------------ 169
Query: 61 GQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIV 120
F RVL D PCSG+G RK + R W + +Q + + LL GG +V
Sbjct: 170 ---YFHRVLLDAPCSGEGMFRKDREAARHWGPSAPKRMAEVQKALLAQASRLLGPGGVLV 226
Query: 121 YSTCSMNPVENEAVVAEILR 140
YSTC+ P ENE VVA L+
Sbjct: 227 YSTCTFAPEENEGVVAHFLK 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 = 66.2 bits (160), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 43/140 (30%), Positives = 63/140 (45%), Gaps = 21/140 (15%)
Query: 1 MVIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNM 60
+++AN++D +R L+ +R A L VT + + F +
Sbjct: 128 LLLANEVDGKRVRGLLENVER-WGAPLAVTQAPPRAL-----AEAFGT------------ 169
Query: 61 GQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIV 120
F RVL D PCSG+G RK + R W + +Q + + LL GG +V
Sbjct: 170 ---YFHRVLLDAPCSGEGMFRKDREAARHWGPSAPKRMAEVQKALLAQASRLLGPGGVLV 226
Query: 121 YSTCSMNPVENEAVVAEILR 140
YSTC+ P ENE VVA L+
Sbjct: 227 YSTCTFAPEENEGVVAHFLK 246
>pdb|3M6X|A Chain A, Multi-Site-Specific 16s Rrna Methyltransferase Rsmf From
Thermus Thermophilus In Space Group P21212
Length = 464
Score = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 43/140 (30%), Positives = 62/140 (44%), Gaps = 21/140 (15%)
Query: 1 MVIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNM 60
+++AN++D +R L+ +R A L VT + + F +
Sbjct: 128 LLLANEVDGKRVRGLLENVERWG-APLAVTQAPPRAL-----AEAFGT------------ 169
Query: 61 GQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIV 120
F RVL D PCSG+G RK + R W +Q + + LL GG +V
Sbjct: 170 ---YFHRVLLDAPCSGEGXFRKDREAARHWGPSAPKRXAEVQKALLAQASRLLGPGGVLV 226
Query: 121 YSTCSMNPVENEAVVAEILR 140
YSTC+ P ENE VVA L+
Sbjct: 227 YSTCTFAPEENEGVVAHFLK 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 = 57.4 bits (137), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 46/82 (56%), Gaps = 2/82 (2%)
Query: 61 GQLLFDRVLCDVPCSGDGTLRKAPDI-WRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRI 119
G+ FDR+L D PCS G +R+ PDI W + + + L LQ +I LK GG +
Sbjct: 312 GEQQFDRILLDAPCSATGVIRRHPDIKWLRRDRDIPE-LAQLQSEILDAIWPHLKTGGTL 370
Query: 120 VYSTCSMNPVENEAVVAEILRK 141
VY+TCS+ P EN + L++
Sbjct: 371 VYATCSVLPEENSLQIKAFLQR 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 = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 48/170 (28%), Positives = 79/170 (46%), Gaps = 23/170 (13%)
Query: 2 VIANDLDVQRCNLLIHQTKRMCTANLIVTNHEAQHFPGCRANKNFSSASDKGIESESNMG 61
++A ++ R L RM N I+ N + + + D +++E
Sbjct: 111 IVAVEISKTRTKALKSNINRMGVLNTIIINADMRKY------------KDYLLKNE---- 154
Query: 62 QLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVY 121
+ FD++L D PCSG+ K ++ + ++ + + I GI LLK G +VY
Sbjct: 155 -IFFDKILLDAPCSGNIIKDKNRNVSEE-DIKYCSLRQKELIDI---GIDLLKKDGELVY 209
Query: 122 STCSMNPVENEAVVAEILRKCEGSVELVDV-SNEVPQLIHRPGLRKWKVR 170
STCSM ENE V+ IL+K VEL+ + +NE + + G K +R
Sbjct: 210 STCSMEVEENEEVIKYILQK-RNDVELIIIKANEFKGINIKEGYIKGTLR 258
>pdb|2YXL|A Chain A, Crystal Structure Of Ph0851
Length = 450
Score = 53.1 bits (126), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 43/73 (58%)
Query: 60 MGQLLFDRVLCDVPCSGDGTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRI 119
+G+ + D+VL D PC+ GT+ K P++ + N + LQ ++ L+K GGR+
Sbjct: 326 IGEEVADKVLLDAPCTSSGTIGKNPELRWRLREDKINEMSQLQRELLESAARLVKPGGRL 385
Query: 120 VYSTCSMNPVENE 132
+Y+TCS+ ENE
Sbjct: 386 LYTTCSIFKEENE 398
>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 = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 9/87 (10%)
Query: 65 FDRVLCDVPCSGD--GTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYS 122
+DRVL DVPC+ D + +I+++ L LQVQ+ G+ K GG +VYS
Sbjct: 225 YDRVLVDVPCTTDRHSLHEEENNIFKRSRKKERQILPVLQVQLLAAGLLATKPGGHVVYS 284
Query: 123 TCSMNPVENEAVVAEILRKCEGSVELV 149
TCS++ ++NE VV +G++EL+
Sbjct: 285 TCSLSHLQNEYVV-------QGAIELL 304
>pdb|4FZV|A Chain A, Crystal Structure Of The Human Mterf4:nsun4:sam Ternary
Complex
Length = 359
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 32/87 (36%), Positives = 50/87 (57%), Gaps = 9/87 (10%)
Query: 65 FDRVLCDVPCSGD--GTLRKAPDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYS 122
+DRVL DVPC+ D + +I+++ L LQVQ+ G+ K GG +VYS
Sbjct: 224 YDRVLVDVPCTTDRHSLHEEENNIFKRSRKKERQILPVLQVQLLAAGLLATKPGGHVVYS 283
Query: 123 TCSMNPVENEAVVAEILRKCEGSVELV 149
TCS++ ++NE VV +G++EL+
Sbjct: 284 TCSLSHLQNEYVV-------QGAIELL 303
>pdb|2B9E|A Chain A, Human Nsun5 Protein
Length = 309
Score = 33.1 bits (74), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 8/97 (8%)
Query: 68 VLCDVPCSGDGTLRKA---PDIWRKWNVGLGNGLHSLQVQIAMRGISLLKVGGRIVYSTC 124
+L D CSG G + P V L + L Q + ++ + R+VYSTC
Sbjct: 178 ILLDPSCSGSGMPSRQLEEPGAGTPSPVRL-HALAGFQQRALCHALTFPSLQ-RLVYSTC 235
Query: 125 SMNPVENEAVVAEILRKCEGSVELVDVSNEVPQLIHR 161
S+ ENE VV + L++ G+ L +P HR
Sbjct: 236 SLCQEENEDVVRDALQQNPGAFRLAPA---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 0.134 0.388
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,027,536
Number of Sequences: 62578
Number of extensions: 756107
Number of successful extensions: 1712
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: 1690
Number of HSP's gapped (non-prelim): 15
length of query: 620
length of database: 14,973,337
effective HSP length: 105
effective length of query: 515
effective length of database: 8,402,647
effective search space: 4327363205
effective search space used: 4327363205
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: 54 (25.4 bits)