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= 021161
(316 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 = 108 bits (271), Expect = 3e-24, Method: Compositional matrix adjust.
Identities = 67/195 (34%), Positives = 105/195 (53%), 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 IVAIDLQPMAPIEG-VIQVQGDITNARTAEVVIRHFDGCKADLVVCDGAPDVTGLHDMDE 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 = 91.3 bits (225), Expect = 6e-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 = 84.7 bits (208), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 96/208 (46%), Gaps = 28/208 (13%)
Query: 20 GWRARSAFKLLQIDEEFNIFEGVKRVVDLCAAPGSWSQVLSRKLYLPAKLSPDSREGDLP 79
+R+R+A+KL+++D ++ + K ++D+ PGSW QV+ + + + +
Sbjct: 1 NYRSRAAYKLIELDNKYLFLKKNKIILDIGCYPGSWCQVILER-------TKNYKNK--- 50
Query: 80 LIVAIDLQPMAPIEGVIQVQGDITNARTAEVV-IRHFDGC----------------KADL 122
I+ ID + M PI V +QG+I + I + D K D+
Sbjct: 51 -IIGIDKKIMDPIPNVYFIQGEIGKDNMNNIKNINYIDNMNNNSVDYKLKEILQDKKIDI 109
Query: 123 VVCDGAPDVTGLHDMDEFVQSQLILAGLTVVTHVLKEGGKFIAKIFRGKDTSLLYCQLKL 182
++ D A G D +L L+ + + GG +I K++ G T+ L LK
Sbjct: 110 ILSDAAVPCIGNKIDDHLNSCELTLSITHFMEQYINIGGTYIVKMYLGSQTNNLKTYLKG 169
Query: 183 FFPVVTFAKPKSSRNSSIEAFAVCENYF 210
F +V KPK+SRN S E + VC+N+
Sbjct: 170 MFQLVHTTKPKASRNESREIYLVCKNFL 197
>pdb|3DOU|A Chain A, Crystal Structure Of Methyltransferase Involved In Cell
Division From Thermoplasma Volcanicum Gss1
Length = 191
Score = 62.0 bits (149), Expect = 4e-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|4GB3|1 Chain 1, Human Coxsackievirus B3 Strain Rd Coat Protein
Length = 281
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 11/88 (12%)
Query: 180 LKLFFPVVTFAKPKSSRNSSIEAFAVCENYFPPEGFNPKDLHRLLEKVGSPWGGEDQDCS 239
L+L F + + +P +++N + Y PP G P +KV S + S
Sbjct: 114 LELTFVITSTQQPSTTQNQDAQILTHQIMYVPPGGPVP-------DKVDSYVWQTSTNPS 166
Query: 240 SGWLEG--PNKVYIPFLACGDL--NGYD 263
W EG P ++ IPFL+ G+ N YD
Sbjct: 167 VFWTEGNAPPRMSIPFLSIGNAYSNFYD 194
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 152 VVTHVLKEGGKFIAKIFRGKDTS-LLYCQLKLFFPVVTFAKPKSSRNSSIEAFAVCENYF 210
V++++KE K I K + LY + K FFP N+++E F +Y+
Sbjct: 54 TVSNLIKEVNKPTLVIAHNKTLAGQLYSEFKEFFP-----------NNAVEYFVSYYDYY 102
Query: 211 PPEGFNPKDLHRLLEKVGSPWGGEDQ---DCSSGWLEGPNKVYIPFLAC 256
PE + P+ +EK S D+ +S E + + I ++C
Sbjct: 103 QPEAYVPQ-TDTFIEKDASINDEIDKLRHSATSALFERRDVIIIASVSC 150
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 47/109 (43%), Gaps = 16/109 (14%)
Query: 152 VVTHVLKEGGKFIAKIFRGKDTS-LLYCQLKLFFPVVTFAKPKSSRNSSIEAFAVCENYF 210
V++++KE K I K + LY + K FFP N+++E F +Y+
Sbjct: 48 TVSNLIKEVNKPTLVIAHNKTLAGQLYSEFKEFFP-----------NNAVEYFVSYYDYY 96
Query: 211 PPEGFNPKDLHRLLEKVGSPWGGEDQ---DCSSGWLEGPNKVYIPFLAC 256
PE + P+ +EK S D+ +S E + + I ++C
Sbjct: 97 QPEAYVPQ-TDTFIEKDASINDEIDKLRHSATSALFERRDVIIIASVSC 144
>pdb|1COV|1 Chain 1, Coxsackievirus B3 Coat Protein
pdb|1JEW|1 Chain 1, Cryo-Em Structure Of Coxsackievirus B3(M Strain) With Its
Cellular Receptor, Coxsackievirus And Adenovirus
Receptor (Car)
Length = 281
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 11/88 (12%)
Query: 180 LKLFFPVVTFAKPKSSRNSSIEAFAVCENYFPPEGFNPKDLHRLLEKVGSPWGGEDQDCS 239
L+L F + + +P +++N + Y PP G P +KV S + S
Sbjct: 114 LELTFVITSTQQPSTTQNQDAQILTHQIMYVPPGGPVP-------DKVDSYVWQTSTNPS 166
Query: 240 SGWLEG--PNKVYIPFLACGDL--NGYD 263
W EG P ++ +PFL+ G+ N YD
Sbjct: 167 VFWTEGNAPPRMSVPFLSIGNAYSNFYD 194
>pdb|2GTL|N Chain N, Lumbricus Erythrocruorin At 3.5a Resolution
Length = 220
Score = 28.9 bits (63), Expect = 4.2, 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
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 0.138 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,055,906
Number of Sequences: 62578
Number of extensions: 433451
Number of successful extensions: 982
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 973
Number of HSP's gapped (non-prelim): 12
length of query: 316
length of database: 14,973,337
effective HSP length: 99
effective length of query: 217
effective length of database: 8,778,115
effective search space: 1904850955
effective search space used: 1904850955
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: 51 (24.3 bits)