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= 012954
(452 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WG8|A Chain A, Crystal Structure Of A Predicted S-Adenosylmethionine-
Dependent Methyltransferase Tt1512 From Thermus
Thermophilus Hb8.
pdb|1WG8|B Chain B, Crystal Structure Of A Predicted S-Adenosylmethionine-
Dependent Methyltransferase Tt1512 From Thermus
Thermophilus Hb8
Length = 285
Score = 180 bits (457), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 126/335 (37%), Positives = 175/335 (52%), Gaps = 61/335 (18%)
Query: 118 PVMLGEVLDVFSSSRTITSFVDCTLGAAGHSSAIIRAHPELKLHIGVDVDPSALAKARA- 176
PV+ E LD+ + R +VD TLG AGH+ I+ + IG+D DP A+A+A+
Sbjct: 8 PVLYQEALDLLAV-RPGGVYVDATLGGAGHARGILERGGRV---IGLDQDPEAVARAKGL 63
Query: 177 HLNSLLHGQAHPHLKTHTFAKNFRHIKSVLGQIDENILRSGVDAILMDLGMSSMQVNNPE 236
HL L Q NFRH+K L + + R VD IL DLG+SS +++P
Sbjct: 64 HLPGLTVVQG-----------NFRHLKRHLAAL--GVER--VDGILADLGVSSFHLDDPS 108
Query: 237 RGFSVLGDGPLDMRMDPQASLKAEDILNSWPDAEVGRVLREYGEESNWHLLQNKIVQARL 296
RGFS +GPLDMRM + A++++N P + R+LRE GEE + + IV AR
Sbjct: 109 RGFSYQKEGPLDMRMGLEGP-TAKEVVNRLPLEALARLLRELGEEPQAYRIARAIVAARE 167
Query: 297 RGGLHSTGELVDLIQSVTPGMRGRRQGWIKTATRVFQALRIAVNDELKTLESSLHACFDC 356
+ + +T +L ++++ G R R G A + FQALRI VNDEL L+ L +
Sbjct: 168 KAPIETTTQLAEIVRKAV-GFR--RAGH--PARKTFQALRIYVNDELNALKEFLEQAAEV 222
Query: 357 LAPGGRLGVISFHSLEDRIVKQTFLSIIDHNREDAEGNEEELRNIRDDNINETWIRQIIQ 416
LAPGGRL VI+FHSLEDR+VK R +R+ +
Sbjct: 223 LAPGGRLVVIAFHSLEDRVVK---------------------RFLRESGL---------- 251
Query: 417 GWNGKILTKRPITPSAEEERLNCRCRSAKLRVIQK 451
K+LTK+P+ PS +E N R RSAKLR +K
Sbjct: 252 ----KVLTKKPLVPSEKEAAQNPRARSAKLRAAEK 282
>pdb|1M6Y|A Chain A, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sah
pdb|1M6Y|B Chain B, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sah
pdb|1N2X|A Chain A, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sam
pdb|1N2X|B Chain B, Crystal Structure Analysis Of Tm0872, A Putative Sam-
Dependent Methyltransferase, Complexed With Sam
Length = 301
Score = 169 bits (428), Expect = 3e-42, Method: Compositional matrix adjust.
Identities = 118/336 (35%), Positives = 169/336 (50%), Gaps = 52/336 (15%)
Query: 118 PVMLGEVLDVFSSSRTITSFVDCTLGAAGHSSAIIRAHPELKLHIGVDVDPSALAKARAH 177
PV + EV++ F +DCT+G GHS AI+ P ++ IG+DVD L A
Sbjct: 12 PVXVREVIE-FLKPEDEKIILDCTVGEGGHSRAILEHCPGCRI-IGIDVDSEVLRIAEEK 69
Query: 178 LNSLLHGQAHPHLKTHTFAKNFRHIKSVLGQIDENILRSGVDAILMDLGMSSMQVNNPER 237
L + F ++R +L + VD IL DLG+S+ Q+ R
Sbjct: 70 LKEFSD-------RVSLFKVSYREADFLLKTLG----IEKVDGILXDLGVSTYQLKGENR 118
Query: 238 GFSVLGDGPLDMRMDPQASLKAEDILNSWPDAEVGRVLREYGEESNW-HLLQNKIVQARL 296
GF+ + PLD R D ++ + A+ +LN P+ E+ R++ EYGEE + + KIV+ R
Sbjct: 119 GFTFEREEPLDXRXDLESEVTAQKVLNELPEEELARIIFEYGEEKRFARRIARKIVENR- 177
Query: 297 RGGLHSTGELVDLIQSVTPGMRGRRQGWIKTATRVFQALRIAVNDELKTLESSLHACFDC 356
L++T +LV ++ P RR+ AT+ FQA+RI VN EL+ L+ L D
Sbjct: 178 --PLNTTLDLVKAVREALPSYEIRRRKR-HFATKTFQAIRIYVNRELENLKEFLKKAEDL 234
Query: 357 LAPGGRLGVISFHSLEDRIVKQTFLSIIDHNREDAEGNEEELRNIRDDNINETWIRQIIQ 416
L PGGR+ VISFHSLEDRIVK+TF N ++LR
Sbjct: 235 LNPGGRIVVISFHSLEDRIVKETF------------RNSKKLR----------------- 265
Query: 417 GWNGKILTKRPITPSAEEERLNCRCRSAKLRVIQKI 452
ILT++P+ PS EE R N R RS +LR ++I
Sbjct: 266 -----ILTEKPVRPSEEEIRENPRARSGRLRAAERI 296
>pdb|3TKA|A Chain A, Crystal Structure And Solution Saxs Of Methyltransferase
Rsmh From E.Coli
Length = 347
Score = 158 bits (399), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 112/328 (34%), Positives = 166/328 (50%), Gaps = 57/328 (17%)
Query: 137 FVDCTLGAAGHSSAIIRAHPELKLHIGVDVDPSALAKARAHLN---SLLHGQAHPHLKTH 193
++D T G GHS I+ E + +D DP A+A A+ + S++HG
Sbjct: 61 YIDGTFGRGGHSRLILSQLGEEGRLLAIDRDPQAIAVAKTIDDPRFSIIHGPF------- 113
Query: 194 TFAKNFRHIKSVLGQ-IDENILRSGVDAILMDLGMSSMQVNNPERGFSVLGDGPLDMRMD 252
S LG+ + E L +D IL+DLG+SS Q+++ ERGFS + DGPLDMRMD
Sbjct: 114 ----------SALGEYVAERDLIGKIDGILLDLGVSSPQLDDAERGFSFMRDGPLDMRMD 163
Query: 253 PQASLKAEDILNSWPDAEVGRVLREYGEESNWHLLQNKIVQARLRGGLHSTGELVDLIQS 312
P A + L + +A++ VL+ YGEE + IV+ + T EL +++ +
Sbjct: 164 PTRGQSAAEWLQTAEEADIAWVLKTYGEERFAKRIARAIVERNREQPMTRTKELAEVVAA 223
Query: 313 VTPGMRGRRQGWIKTATRVFQALRIAVNDELKTLESSLHACFDCLAPGGRLGVISFHSLE 372
TP + + ATR FQA+RI VN EL+ +E +L + + LAPGGRL +ISFHSLE
Sbjct: 224 ATP----VKDKFKHPATRTFQAVRIWVNSELEEIEQALKSSLNVLAPGGRLSIISFHSLE 279
Query: 373 DRIVKQTFLSIIDHNREDAEG---------NEEELRNIRDDNINETWIRQIIQGWNGKIL 423
DRIVK+ RE++ G EE+L+ + + GK++
Sbjct: 280 DRIVKRFM-------RENSRGPQVPAGLPMTEEQLKKLGGRQLRAL----------GKLM 322
Query: 424 TKRPITPSAEEERLNCRCRSAKLRVIQK 451
P EE N R RS+ LR+ ++
Sbjct: 323 ------PGEEEVAENPRARSSVLRIAER 344
>pdb|1II5|A Chain A, Crystal Structure Of The Glur0 Ligand Binding Core Complex
With L- Glutamate
Length = 233
Score = 32.0 bits (71), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 4/59 (6%)
Query: 28 LVFPSSVKLKSAAVFGVSLPNPNPWAGVAVF---TTFP-FRAANDSKNKKVAKAKATSA 82
L+ P SV + AA+ G++ P +G+ + T P FR+ D KNK+VA + T+A
Sbjct: 69 LIGPISVTPERAAIEGITFTQPYFSSGIGLLIPGTATPLFRSVGDLKNKEVAVVRDTTA 127
>pdb|1IIT|A Chain A, Glur0 Ligand Binding Core Complex With L-Serine
pdb|1IIW|A Chain A, Glur0 Ligand Binding Core: Closed-Cleft Ligand-Free
Structure
Length = 232
Score = 32.0 bits (71), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 33/59 (55%), Gaps = 4/59 (6%)
Query: 28 LVFPSSVKLKSAAVFGVSLPNPNPWAGVAVF---TTFP-FRAANDSKNKKVAKAKATSA 82
L+ P SV + AA+ G++ P +G+ + T P FR+ D KNK+VA + T+A
Sbjct: 69 LIGPISVTPERAAIEGITFTQPYFSSGIGLLIPGTATPLFRSVGDLKNKEVAVVRDTTA 127
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
0.319 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,078,163
Number of Sequences: 62578
Number of extensions: 475191
Number of successful extensions: 1001
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 987
Number of HSP's gapped (non-prelim): 13
length of query: 452
length of database: 14,973,337
effective HSP length: 102
effective length of query: 350
effective length of database: 8,590,381
effective search space: 3006633350
effective search space used: 3006633350
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)