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= 025715
(249 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 = 109 bits (273), Expect = 1e-24, Method: Compositional matrix adjust.
Identities = 67/195 (34%), Positives = 106/195 (54%), Gaps = 5/195 (2%)
Query: 21 WRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLPL 80
+R+RSAFKLL+++E I RV+D AAPG+WSQV +K+ A P S G
Sbjct: 2 YRSRSAFKLLEVNERHQILRPGLRVLDCGAAPGAWSQVAVQKVN-AAGTDPSSPVG---F 57
Query: 81 IVAIDLQPMAPIEGVIQV-QGDITNARTAEVVIRHFDGCKADLVVCDGAPDVTGLHDMDE 139
++ +DL + P+EG + D+T+ RT++ ++ G +AD+++ D AP+ TG D+D
Sbjct: 58 VLGVDLLHIFPLEGATFLCPADVTDPRTSQRILEVLPGRRADVILSDMAPNATGFRDLDH 117
Query: 140 FVQSQLILAGLTVVTHVLKEGGKFIAKIFRGKDTSLLYCQLKLFFPVVTFAKPKSSRNSS 199
L L L+V +L+ GG F+ K + G + L +L F V KP++SR S
Sbjct: 118 DRLISLCLTLLSVTPDILQPGGTFLCKTWAGSQSRRLQRRLTEEFQNVRIIKPEASRKES 177
Query: 200 IEAFAVCENYFPPEG 214
E + + Y +G
Sbjct: 178 SEVYFLATQYHGRKG 192
>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 = 92.0 bits (227), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 62/192 (32%), Positives = 93/192 (48%), Gaps = 12/192 (6%)
Query: 20 GWRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLP 79
G R+R+ FKL +I + +F+ VVDL AAPG WSQ Y+ ++ R
Sbjct: 1 GLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQ------YVVTQIGGKGR----- 49
Query: 80 LIVAIDLQPMAPIEGVIQVQGDITNARTAEVVIRHFDGCKADLVVCDGAPDVTGLHDMDE 139
I+A DL PM PI GV +QGD + + ++ K +V+ D AP+++G +D
Sbjct: 50 -IIACDLLPMDPIVGVDFLQGDFRDELVMKALLERVGDSKVQVVMSDMAPNMSGTPAVDI 108
Query: 140 FVQSQLILAGLTVVTHVLKEGGKFIAKIFRGKDTSLLYCQLKLFFPVVTFAKPKSSRNSS 199
L+ L + VL GG F+ K+F+G+ +++ F V KP SSR S
Sbjct: 109 PRAMYLVELALEMCRDVLAPGGSFVVKVFQGEGFDEYLREIRSLFTKVKVRKPDSSRARS 168
Query: 200 IEAFAVCENYFP 211
E + V P
Sbjct: 169 REVYIVATGRKP 180
>pdb|2PLW|A Chain A, Crystal Structure Of A Ribosomal Rna Methyltransferase,
Putative, From Plasmodium Falciparum (Pf13_0052)
Length = 201
Score = 85.1 bits (209), Expect = 3e-17, Method: Compositional matrix adjust.
Identities = 59/209 (28%), Positives = 94/209 (44%), Gaps = 30/209 (14%)
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 LVVCDGAPDVTGLHDMDEFVQSQLILAGLTVVTHVLKEGGKFIAKIFRGKDTSLLYCQLK 181
+++ D A G D +L L+ + + GG +I K++ G T+ L LK
Sbjct: 109 IILSDAAVPCIGNKIDDHLNSCELTLSITHFMEQYINIGGTYIVKMYLGSQTNNLKTYLK 168
Query: 182 LFFPVVTFAKPKSSRNSSIEAFAVCENYF 210
F +V KPK+SRN S E + VC+N+
Sbjct: 169 GMFQLVHTTKPKASRNESREIYLVCKNFL 197
>pdb|3DOU|A Chain A, Crystal Structure Of Methyltransferase Involved In Cell
Division From Thermoplasma Volcanicum Gss1
Length = 191
Score = 63.2 bits (152), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 52/185 (28%), Positives = 84/185 (45%), Gaps = 18/185 (9%)
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 EFVQSQLILAGLTVVTHVLKEGGKFIAKIFRGKDTSLLYCQLKLFFPVVTFAKPKSSRNS 198
V Q+ + L+ GG + K F+G T+ + F +KP +SR S
Sbjct: 111 HAVSYQIGQRVXEIAVRYLRNGGNVLLKQFQGDXTNDFIAIWRKNFSSYKISKPPASRGS 170
Query: 199 SIEAF 203
S E +
Sbjct: 171 SSEIY 175
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 12/68 (17%)
Query: 152 VVTHVLKEGGKFIAKIFRGKDTS-LLYCQLKLFFPVVTFAKPKSSRNSSIEAFAVCENYF 210
V++++KE K I K + LY + K FFP N+++E F +Y+
Sbjct: 54 TVSNLIKEVNKPTLVIAHNKTLAGQLYSEFKEFFP-----------NNAVEYFVSYYDYY 102
Query: 211 PPEGFNPK 218
PE + P+
Sbjct: 103 QPEAYVPQ 110
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 32/68 (47%), Gaps = 12/68 (17%)
Query: 152 VVTHVLKEGGKFIAKIFRGKDTS-LLYCQLKLFFPVVTFAKPKSSRNSSIEAFAVCENYF 210
V++++KE K I K + LY + K FFP N+++E F +Y+
Sbjct: 48 TVSNLIKEVNKPTLVIAHNKTLAGQLYSEFKEFFP-----------NNAVEYFVSYYDYY 96
Query: 211 PPEGFNPK 218
PE + P+
Sbjct: 97 QPEAYVPQ 104
>pdb|2GTL|N Chain N, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 220
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 118 CKADLVVCDGAPDVTGLHDMD-EFVQSQLILAG 149
C +DL+VCDG D HD D + + ++ AG
Sbjct: 67 CISDLLVCDGHKDCHNAHDEDPDVCDTSVVKAG 99
>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 = 28.5 bits (62), Expect = 3.3, 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
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
0.322 0.140 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,659,028
Number of Sequences: 62578
Number of extensions: 312834
Number of successful extensions: 563
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: 554
Number of HSP's gapped (non-prelim): 11
length of query: 249
length of database: 14,973,337
effective HSP length: 96
effective length of query: 153
effective length of database: 8,965,849
effective search space: 1371774897
effective search space used: 1371774897
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)