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= 030299
(179 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 = 81.6 bits (200), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 45/120 (37%), Positives = 72/120 (60%), Gaps = 5/120 (4%)
Query: 21 WRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLPL 80
+R+RSAFKLL+++E I RV+D AAPG+WSQV +K+ A P S G
Sbjct: 2 YRSRSAFKLLEVNERHQILRPGLRVLDCGAAPGAWSQVAVQKVNA-AGTDPSSPVG---F 57
Query: 81 IVAIDLQPMAPIEGVIQV-QGDITNARTAEVVIRHFDGCKADLVVCDGAPDVTGLHDMDE 139
++ +DL + P+EG + D+T+ RT++ ++ G +AD+++ D AP+ TG D+D
Sbjct: 58 VLGVDLLHIFPLEGATFLCPADVTDPRTSQRILEVLPGRRADVILSDMAPNATGFRDLDH 117
>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 = 63.9 bits (154), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/119 (34%), Positives = 62/119 (52%), Gaps = 12/119 (10%)
Query: 20 GWRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLP 79
G R+R+ FKL +I + +F+ VVDL AAPG WSQ Y+ ++ R
Sbjct: 1 GLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQ------YVVTQIGGKGR----- 49
Query: 80 LIVAIDLQPMAPIEGVIQVQGDITNARTAEVVIRHFDGCKADLVVCDGAPDVTGLHDMD 138
I+A DL PM PI GV +QGD + + ++ K +V+ D AP+++G +D
Sbjct: 50 -IIACDLLPMDPIVGVDFLQGDFRDELVMKALLERVGDSKVQVVMSDMAPNMSGTPAVD 107
>pdb|2PLW|A Chain A, Crystal Structure Of A Ribosomal Rna Methyltransferase,
Putative, From Plasmodium Falciparum (Pf13_0052)
Length = 201
Score = 48.1 bits (113), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/175 (25%), Positives = 75/175 (42%), Gaps = 42/175 (24%)
Query: 20 GWRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQV-LSRKLYLPAKLSPDSREGDL 78
+R+R+A+KL+++D ++ + K ++D+ PGSW QV L R K
Sbjct: 1 NYRSRAAYKLIELDNKYLFLKKNKIILDIGCYPGSWCQVILERTKNYKNK---------- 50
Query: 79 PLIVAIDLQPMAPIEGVIQVQGDITNARTAEVV-IRHFDGC----------------KAD 121
I+ ID + M PI V +QG+I + I + D K D
Sbjct: 51 --IIGIDKKIMDPIPNVYFIQGEIGKDNMNNIKNINYIDNMNNNSVDYKLKEILQDKKID 108
Query: 122 LVVCDGAPDVTGLHDMDEFVQSQLILAVSIQFFIYELVFCLRQLLQYVILDGSYF 176
+++ D A G + +D+ + S L +SI F + QY+ + G+Y
Sbjct: 109 IILSDAAVPCIG-NKIDDHLNS-CELTLSITHF----------MEQYINIGGTYI 151
>pdb|3DOU|A Chain A, Crystal Structure Of Methyltransferase Involved In Cell
Division From Thermoplasma Volcanicum Gss1
Length = 191
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 60/127 (47%), Gaps = 18/127 (14%)
Query: 22 RARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLPLI 81
R+R+AFKL + + + + V+++ ++PG W+QVL+ L K I
Sbjct: 6 RSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVLNS---LARK------------I 50
Query: 82 VAIDLQPMAPIEGVIQVQGDITNARTAEVVIRHF--DGC-KADLVVCDGAPDVTGLHDMD 138
++IDLQ I GV ++ DI + + R +G K D VV D V+G+ D
Sbjct: 51 ISIDLQEXEEIAGVRFIRCDIFKETIFDDIDRALREEGIEKVDDVVSDAXAKVSGIPSRD 110
Query: 139 EFVQSQL 145
V Q+
Sbjct: 111 HAVSYQI 117
>pdb|3REO|A Chain A, Monolignol O-Methyltransferase (Momt)
pdb|3REO|B Chain B, Monolignol O-Methyltransferase (Momt)
pdb|3REO|C Chain C, Monolignol O-Methyltransferase (Momt)
pdb|3REO|D Chain D, Monolignol O-Methyltransferase (Momt)
pdb|3TKY|A Chain A, Monolignol O-Methyltransferase (Momt)
pdb|3TKY|B Chain B, Monolignol O-Methyltransferase (Momt)
pdb|3TKY|C Chain C, Monolignol O-Methyltransferase (Momt)
pdb|3TKY|D Chain D, Monolignol O-Methyltransferase (Momt)
Length = 368
Score = 30.0 bits (66), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 9/89 (10%)
Query: 14 RKAKEEGWRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDS 73
K +G + S + +I E +N FEG+ +VD+ G+ + ++ K S ++
Sbjct: 176 NKVFNKGMSSNSTITMKKILEMYNGFEGLTTIVDVGGGTGAVASMIVAKY-----PSINA 230
Query: 74 REGDLPLIVAIDLQPMAPIEGVIQVQGDI 102
DLP ++ Q GV + GD+
Sbjct: 231 INFDLPHVI----QDAPAFSGVEHLGGDM 255
>pdb|1YCD|A Chain A, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
pdb|1YCD|B Chain B, Crystal Structure Of Yeast Fsh1/yhr049w, A Member Of The
Serine Hydrolase Family
Length = 243
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 32/60 (53%), Gaps = 8/60 (13%)
Query: 7 DKRDIYYRKAKEEGWRA-------RSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVL 59
+K+D+ + + +E W+A R+ F +I E +I EG+K VVD A G + ++
Sbjct: 49 EKKDLPF-EMDDEKWQATLDADVNRAWFYHSEISHELDISEGLKSVVDHIKANGPYDGIV 107
>pdb|2GTL|N Chain N, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 220
Score = 28.1 bits (61), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 118 CKADLVVCDGAPDVTGLHDMD 138
C +DL+VCDG D HD D
Sbjct: 67 CISDLLVCDGHKDCHNAHDED 87
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
0.325 0.141 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,163,560
Number of Sequences: 62578
Number of extensions: 193827
Number of successful extensions: 537
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 529
Number of HSP's gapped (non-prelim): 11
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 48 (23.1 bits)