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= psy3133
(547 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2PLW|A Chain A, Crystal Structure Of A Ribosomal Rna Methyltransferase,
Putative, From Plasmodium Falciparum (Pf13_0052)
Length = 201
Score = 68.9 bits (167), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 35/101 (34%), Positives = 58/101 (57%), Gaps = 2/101 (1%)
Query: 17 LKTWKVDVVLHDGS-PNVGMNWVYDAYHQCCLTLGALKLASGILKEGGWFVTKVFRSKDY 75
L+ K+D++L D + P +G N + D + C LTL + GG ++ K++
Sbjct: 102 LQDKKIDIILSDAAVPCIG-NKIDDHLNSCELTLSITHFMEQYINIGGTYIVKMYLGSQT 160
Query: 76 TSLLWIFKQLFQRVHSTKPQASRKESAEIFVVCQHYIAPAK 116
+L K +FQ VH+TKP+ASR ES EI++VC++++ K
Sbjct: 161 NNLKTYLKGMFQLVHTTKPKASRNESREIYLVCKNFLGRKK 201
Score = 51.6 bits (122), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 21/38 (55%), Positives = 30/38 (78%)
Query: 190 YRSRAAFKLIQLNRKFEFLQKSKVCVDLCAAPGGWMQV 227
YRSRAA+KLI+L+ K+ FL+K+K+ +D+ PG W QV
Sbjct: 2 YRSRAAYKLIELDNKYLFLKKNKIILDIGCYPGSWCQV 39
>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 = 54.7 bits (130), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 36/111 (32%), Positives = 53/111 (47%), Gaps = 4/111 (3%)
Query: 3 DITTDKCRIAITRELKTWKVDVVLHDGSPNVG--MNWVYDAYHQCCLTLGALKLASGILK 60
D+T + I L + DV+L D +PN + +D CLTL L + IL+
Sbjct: 79 DVTDPRTSQRILEVLPGRRADVILSDMAPNATGFRDLDHDRLISLCLTL--LSVTPDILQ 136
Query: 61 EGGWFVTKVFRSKDYTSLLWIFKQLFQRVHSTKPQASRKESAEIFVVCQHY 111
GG F+ K + L + FQ V KP+ASRKES+E++ + Y
Sbjct: 137 PGGTFLCKTWAGSQSRRLQRRLTEEFQNVRIIKPEASRKESSEVYFLATQY 187
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 31/47 (65%)
Query: 190 YRSRAAFKLIQLNRKFEFLQKSKVCVDLCAAPGGWMQVAKQNMMASS 236
YRSR+AFKL+++N + + L+ +D AAPG W QVA Q + A+
Sbjct: 2 YRSRSAFKLLEVNERHQILRPGLRVLDCGAAPGAWSQVAVQKVNAAG 48
>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 = 53.9 bits (128), Expect = 2e-07, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 45/87 (51%)
Query: 21 KVDVVLHDGSPNVGMNWVYDAYHQCCLTLGALKLASGILKEGGWFVTKVFRSKDYTSLLW 80
KV VV+ D +PN+ D L AL++ +L GG FV KVF+ + + L
Sbjct: 88 KVQVVMSDMAPNMSGTPAVDIPRAMYLVELALEMCRDVLAPGGSFVVKVFQGEGFDEYLR 147
Query: 81 IFKQLFQRVHSTKPQASRKESAEIFVV 107
+ LF +V KP +SR S E+++V
Sbjct: 148 EIRSLFTKVKVRKPDSSRARSREVYIV 174
Score = 39.7 bits (91), Expect = 0.005, Method: Composition-based stats.
Identities = 18/38 (47%), Positives = 23/38 (60%)
Query: 189 GYRSRAAFKLIQLNRKFEFLQKSKVCVDLCAAPGGWMQ 226
G RSRA FKL ++ + + + VDL AAPGGW Q
Sbjct: 1 GLRSRAWFKLDEIQQSDKLFKPGMTVVDLGAAPGGWSQ 38
>pdb|3DOU|A Chain A, Crystal Structure Of Methyltransferase Involved In Cell
Division From Thermoplasma Volcanicum Gss1
Length = 191
Score = 42.4 bits (98), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 191 RSRAAFKLIQLNRKFEFLQKSKVCVDLCAAPGGWMQVAKQNMMASSIIHFD 241
RSRAAFKL L ++ ++K +++ ++PGGW QV N +A II D
Sbjct: 6 RSRAAFKLEFLLDRYRVVRKGDAVIEIGSSPGGWTQVL--NSLARKIISID 54
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 43/94 (45%), Gaps = 4/94 (4%)
Query: 15 RELKTWKVDVVLHDGSPNVGMNWVYDAYHQCCLTLG--ALKLASGILKEGGWFVTKVFRS 72
RE KVD V+ D V + + H +G ++A L+ GG + K F+
Sbjct: 85 REEGIEKVDDVVSDAXAKV--SGIPSRDHAVSYQIGQRVXEIAVRYLRNGGNVLLKQFQG 142
Query: 73 KDYTSLLWIFKQLFQRVHSTKPQASRKESAEIFV 106
+ I+++ F +KP ASR S+EI++
Sbjct: 143 DXTNDFIAIWRKNFSSYKISKPPASRGSSSEIYI 176
>pdb|3OPN|A Chain A, The Crystal Structure Of A Putative Hemolysin From
Lactococcus Lactis
Length = 232
Score = 32.0 bits (71), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 190 YRSRAAFKLIQLNRKFEFLQKSKVCVDLCAAPGGWMQVAKQN 231
Y SR KL + ++F K C+D+ ++ GG+ V QN
Sbjct: 17 YVSRGGLKLEKALKEFHLEINGKTCLDIGSSTGGFTDVXLQN 58
>pdb|3U1K|A Chain A, Crystal Structure Of Human Pnpase
pdb|3U1K|C Chain C, Crystal Structure Of Human Pnpase
pdb|3U1K|B Chain B, Crystal Structure Of Human Pnpase
pdb|3U1K|D Chain D, Crystal Structure Of Human Pnpase
Length = 630
Score = 29.3 bits (64), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 6/57 (10%)
Query: 83 KQLFQRVHST--KPQASRKESAEIFVVCQHYIAPAKLDTKFFDP-KYAFKELGAEDG 136
K++ Q ++ T KP+ASRKE+ + Q P KF P Y K+L AE G
Sbjct: 544 KEILQIMNKTISKPRASRKENGPVVETVQ---VPLSKRAKFVGPGGYNLKKLQAETG 597
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
0.318 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,072,752
Number of Sequences: 62578
Number of extensions: 478527
Number of successful extensions: 966
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 956
Number of HSP's gapped (non-prelim): 12
length of query: 547
length of database: 14,973,337
effective HSP length: 104
effective length of query: 443
effective length of database: 8,465,225
effective search space: 3750094675
effective search space used: 3750094675
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)