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= psy1489
(229 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2NYU|A Chain A, Crystal Structure Of Human Ftsj Homolog 2 (E.Coli) Protein
In Complex With S-Adenosylmethionine
pdb|2NYU|B Chain B, Crystal Structure Of Human Ftsj Homolog 2 (E.Coli) Protein
In Complex With S-Adenosylmethionine
Length = 196
Score = 173 bits (438), Expect = 7e-44, Method: Compositional matrix adjust.
Identities = 82/190 (43%), Positives = 116/190 (61%)
Query: 40 NYRCRSAFKLLEIDSKIKFLRPGLKVLDCGAAPGSWSQVAVKLVNSHGYDSKQPKGLVLS 99
+YR RSAFKLLE++ + + LRPGL+VLDCGAAPG+WSQVAV+ VN+ G D P G VL
Sbjct: 1 SYRSRSAFKLLEVNERHQILRPGLRVLDCGAAPGAWSQVAVQKVNAAGTDPSSPVGFVLG 60
Query: 100 VDKLPIYPIDGAVVLSKCDFTQPDIQDRLVTIXXXXXXXXXXSDMAPNATGMREMDHDLI 159
VD L I+P++GA L D T P R++ + SDMAPNATG R++DHD +
Sbjct: 61 VDLLHIFPLEGATFLCPADVTDPRTSQRILEVLPGRRADVILSDMAPNATGFRDLDHDRL 120
Query: 160 TQLAIAVIRFAVTYSKPGADCLIKIWDGRNRPQLEESITRFYSQVKILKPPSSRSHSAEL 219
L + ++ +PG L K W G +L+ +T + V+I+KP +SR S+E+
Sbjct: 121 ISLCLTLLSVTPDILQPGGTFLCKTWAGSQSRRLQRRLTEEFQNVRIIKPEASRKESSEV 180
Query: 220 FLLGRGFKGK 229
+ L + G+
Sbjct: 181 YFLATQYHGR 190
>pdb|1EIZ|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine
pdb|1EJ0|A Chain A, Ftsj Rna Methyltransferase Complexed With S-
Adenosylmethionine, Mercury Derivative
Length = 180
Score = 93.2 bits (230), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 63/196 (32%), Positives = 94/196 (47%), Gaps = 25/196 (12%)
Query: 40 NYRCRSAFKLLEIDSKIKFLRPGLKVLDCGAAPGSWSQVAVKLVNSHGYDSKQPKGLVLS 99
R R+ FKL EI K +PG+ V+D GAAPG WSQ V + KG +++
Sbjct: 1 GLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQYVVTQIGG--------KGRIIA 52
Query: 100 VDKLPIYPIDGAVVLSKCDFTQPDIQDRLVTIXXX-----XXXXXXXSDMAPNATGMREM 154
D LP+ PI G DF Q D +D LV SDMAPN +G +
Sbjct: 53 CDLLPMDPIVG------VDFLQGDFRDELVMKALLERVGDSKVQVVMSDMAPNMSGTPAV 106
Query: 155 D---HDLITQLAIAVIRFAVTYSKPGADCLIKIWDGRNRPQLEESITRFYSQVKILKPPS 211
D + +LA+ + R + PG ++K++ G + I +++VK+ KP S
Sbjct: 107 DIPRAMYLVELALEMCRDVLA---PGGSFVVKVFQGEGFDEYLREIRSLFTKVKVRKPDS 163
Query: 212 SRSHSAELFLLGRGFK 227
SR+ S E++++ G K
Sbjct: 164 SRARSREVYIVATGRK 179
>pdb|2PLW|A Chain A, Crystal Structure Of A Ribosomal Rna Methyltransferase,
Putative, From Plasmodium Falciparum (Pf13_0052)
Length = 201
Score = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 54/206 (26%), Positives = 92/206 (44%), Gaps = 23/206 (11%)
Query: 40 NYRCRSAFKLLEIDSKIKFLRPGLKVLDCGAAPGSWSQVAVKLVNSHGYDSKQPKGLVLS 99
NYR R+A+KL+E+D+K FL+ +LD G PGSW QV ++ +K K ++
Sbjct: 1 NYRSRAAYKLIELDNKYLFLKKNKIILDIGCYPGSWCQVILE-------RTKNYKNKIIG 53
Query: 100 VDK-----LP-IYPIDGAVVLSKC----------DFTQPDIQDRLVTIXXXXXXXXXXSD 143
+DK +P +Y I G + + + +L I SD
Sbjct: 54 IDKKIMDPIPNVYFIQGEIGKDNMNNIKNINYIDNMNNNSVDYKLKEILQDKKIDIILSD 113
Query: 144 MAPNATGMREMDHDLITQLAIAVIRFAVTYSKPGADCLIKIWDGRNRPQLEESITRFYSQ 203
A G + DH +L +++ F Y G ++K++ G L+ + +
Sbjct: 114 AAVPCIGNKIDDHLNSCELTLSITHFMEQYINIGGTYIVKMYLGSQTNNLKTYLKGMFQL 173
Query: 204 VKILKPPSSRSHSAELFLLGRGFKGK 229
V KP +SR+ S E++L+ + F G+
Sbjct: 174 VHTTKPKASRNESREIYLVCKNFLGR 199
>pdb|3DOU|A Chain A, Crystal Structure Of Methyltransferase Involved In Cell
Division From Thermoplasma Volcanicum Gss1
Length = 191
Score = 71.6 bits (174), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/191 (27%), Positives = 85/191 (44%), Gaps = 15/191 (7%)
Query: 42 RCRSAFKLLEIDSKIKFLRPGLKVLDCGAAPGSWSQVAVKLVNSHGYDSKQPKGLVLSVD 101
R R+AFKL + + + +R G V++ G++PG W+QV L ++S+D
Sbjct: 6 RSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNSLARK-----------IISID 54
Query: 102 KLPIYPIDGAVVLSKCDFTQPDI---QDRLVTIXXXXXXXXXXSDMAPNATGMREMDHDL 158
I G V +CD + I DR + SD +G+ DH +
Sbjct: 55 LQEXEEIAG-VRFIRCDIFKETIFDDIDRALREEGIEKVDDVVSDAXAKVSGIPSRDHAV 113
Query: 159 ITQLAIAVIRFAVTYSKPGADCLIKIWDGRNRPQLEESITRFYSQVKILKPPSSRSHSAE 218
Q+ V AV Y + G + L+K + G + +S KI KPP+SR S+E
Sbjct: 114 SYQIGQRVXEIAVRYLRNGGNVLLKQFQGDXTNDFIAIWRKNFSSYKISKPPASRGSSSE 173
Query: 219 LFLLGRGFKGK 229
+++ GFK +
Sbjct: 174 IYIXFFGFKAE 184
>pdb|2YXE|A Chain A, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
pdb|2YXE|B Chain B, Crystal Structure Of L-Isoaspartyl Protein Carboxyl
Methyltranferase
Length = 215
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 50/97 (51%), Gaps = 14/97 (14%)
Query: 9 LKEVPKGKDHSSHLWLKRQFADPYVQKAKKENY-RCRSAFKLLEIDSKIKFLRPGLKVLD 67
L +VP+ + HL +++A YV + Y + SA ++ + ++ L+PG+KVL+
Sbjct: 29 LLKVPREEFLPEHL---KEYA--YVDTPLEIGYGQTISAIHMVGMMCELLDLKPGMKVLE 83
Query: 68 CGAAPGSWSQVAVKLVNSHGYDSKQPKGLVLSVDKLP 104
G G + V ++V GLV+S++++P
Sbjct: 84 IGTGCGYHAAVTAEIVGED--------GLVVSIERIP 112
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 0.136 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,671,921
Number of Sequences: 62578
Number of extensions: 239976
Number of successful extensions: 494
Number of sequences better than 100.0: 5
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 486
Number of HSP's gapped (non-prelim): 5
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 50 (23.9 bits)