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= 003302
(832 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 = 105 bits (262), Expect = 1e-22, Method: Composition-based stats.
Identities = 69/190 (36%), Positives = 102/190 (53%), Gaps = 14/190 (7%)
Query: 22 YRSRASWKLVQLDSKFSFLRSSHAVLDLCAAPGGWMQVAVQRV---------PVGSLVLG 72
YRSR+++KL++++ + LR VLD AAPG W QVAVQ+V PVG VLG
Sbjct: 2 YRSRSAFKLLEVNERHQILRPGLRVLDCGAAPGAWSQVAVQKVNAAGTDPSSPVG-FVLG 60
Query: 73 LDLVPIAPIRGAVSL-EQDITKPECRARVKKVMEEHGVRAFDLVLHDGSPNVGGAWAQEA 131
+DL+ I P+ GA L D+T P R+ +V+ G RA D++L D +PN G +
Sbjct: 61 VDLLHIFPLEGATFLCPADVTDPRTSQRILEVLP--GRRA-DVILSDMAPNATGFRDLDH 117
Query: 132 MSQNALVIDSVKLATQFLAPKGTFVTKVFRSQDYSSVLYCLKQLFEKVEVDKPAASRSAS 191
+L + + + L P GTF+ K + + L + F+ V + KP ASR S
Sbjct: 118 DRLISLCLTLLSVTPDILQPGGTFLCKTWAGSQSRRLQRRLTEEFQNVRIIKPEASRKES 177
Query: 192 AEIYLLGIKY 201
+E+Y L +Y
Sbjct: 178 SEVYFLATQY 187
>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 = 97.1 bits (240), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 59/177 (33%), Positives = 95/177 (53%), Gaps = 3/177 (1%)
Query: 21 GYRSRASWKLVQLDSKFSFLRSSHAVLDLCAAPGGWMQVAVQRVPVGSLVLGLDLVPIAP 80
G RSRA +KL ++ + V+DL AAPGGW Q V ++ ++ DL+P+ P
Sbjct: 1 GLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQYVVTQIGGKGRIIACDLLPMDP 60
Query: 81 IRGAVSLEQDITKPECRARVKKVMEEHGVRAFDLVLHDGSPNVGGAWAQEAMSQNALVID 140
I G L+ D +K ++E G +V+ D +PN+ G A + LV
Sbjct: 61 IVGVDFLQGDFRD---ELVMKALLERVGDSKVQVVMSDMAPNMSGTPAVDIPRAMYLVEL 117
Query: 141 SVKLATQFLAPKGTFVTKVFRSQDYSSVLYCLKQLFEKVEVDKPAASRSASAEIYLL 197
++++ LAP G+FV KVF+ + + L ++ LF KV+V KP +SR+ S E+Y++
Sbjct: 118 ALEMCRDVLAPGGSFVVKVFQGEGFDEYLREIRSLFTKVKVRKPDSSRARSREVYIV 174
>pdb|2PLW|A Chain A, Crystal Structure Of A Ribosomal Rna Methyltransferase,
Putative, From Plasmodium Falciparum (Pf13_0052)
Length = 201
Score = 82.0 bits (201), Expect = 1e-15, Method: Composition-based stats.
Identities = 50/194 (25%), Positives = 98/194 (50%), Gaps = 21/194 (10%)
Query: 22 YRSRASWKLVQLDSKFSFLRSSHAVLDLCAAPGGWMQVAVQRVP-VGSLVLGLDLVPIAP 80
YRSRA++KL++LD+K+ FL+ + +LD+ PG W QV ++R + ++G+D + P
Sbjct: 2 YRSRAAYKLIELDNKYLFLKKNKIILDIGCYPGSWCQVILERTKNYKNKIIGIDKKIMDP 61
Query: 81 IRGAVSLEQDITKPECRA-----------------RVKKVMEEHGVRAFDLVLHDGSPNV 123
I ++ +I K ++K+++++ + D++L D +
Sbjct: 62 IPNVYFIQGEIGKDNMNNIKNINYIDNMNNNSVDYKLKEILQD---KKIDIILSDAAVPC 118
Query: 124 GGAWAQEAMSQNALVIDSVKLATQFLAPKGTFVTKVFRSQDYSSVLYCLKQLFEKVEVDK 183
G + ++ L + Q++ GT++ K++ +++ LK +F+ V K
Sbjct: 119 IGNKIDDHLNSCELTLSITHFMEQYINIGGTYIVKMYLGSQTNNLKTYLKGMFQLVHTTK 178
Query: 184 PAASRSASAEIYLL 197
P ASR+ S EIYL+
Sbjct: 179 PKASRNESREIYLV 192
>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 = 2e-12, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 89/184 (48%), Gaps = 9/184 (4%)
Query: 23 RSRASWKLVQLDSKFSFLRSSHAVLDLCAAPGGWMQVAVQRVPVGSL---VLGLDLVPIA 79
RSRA++KL L ++ +R AV+++ ++PGGW QV + SL ++ +DL
Sbjct: 6 RSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQV------LNSLARKIISIDLQEXE 59
Query: 80 PIRGAVSLEQDITKPECRARVKKVMEEHGVRAFDLVLHDGSPNVGGAWAQEAMSQNALVI 139
I G + DI K + + + E G+ D V+ D V G +++ +
Sbjct: 60 EIAGVRFIRCDIFKETIFDDIDRALREEGIEKVDDVVSDAXAKVSGIPSRDHAVSYQIGQ 119
Query: 140 DSVKLATQFLAPKGTFVTKVFRSQDYSSVLYCLKQLFEKVEVDKPAASRSASAEIYLLGI 199
++A ++L G + K F+ + + ++ F ++ KP ASR +S+EIY+
Sbjct: 120 RVXEIAVRYLRNGGNVLLKQFQGDXTNDFIAIWRKNFSSYKISKPPASRGSSSEIYIXFF 179
Query: 200 KYKA 203
+KA
Sbjct: 180 GFKA 183
>pdb|1J7H|A Chain A, Solution Structure Of Hi0719, A Hypothetical Protein From
Haemophilus Influenzae
pdb|1J7H|B Chain B, Solution Structure Of Hi0719, A Hypothetical Protein From
Haemophilus Influenzae
pdb|1J7H|C Chain C, Solution Structure Of Hi0719, A Hypothetical Protein From
Haemophilus Influenzae
Length = 130
Score = 30.4 bits (67), Expect = 4.3, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 29/55 (52%)
Query: 61 VQRVPVGSLVLGLDLVPIAPIRGAVSLEQDITKPECRARVKKVMEEHGVRAFDLV 115
VQ V +G+LVL +P+ P G V + + VK ++E+ G+ A D+V
Sbjct: 19 VQAVDLGNLVLTSGQIPVNPATGEVPADIVAQARQSLENVKAIIEKAGLTAADIV 73
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
0.313 0.130 0.367
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,862,325
Number of Sequences: 62578
Number of extensions: 868864
Number of successful extensions: 1640
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1614
Number of HSP's gapped (non-prelim): 26
length of query: 832
length of database: 14,973,337
effective HSP length: 107
effective length of query: 725
effective length of database: 8,277,491
effective search space: 6001180975
effective search space used: 6001180975
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 56 (26.2 bits)