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= 027374
(224 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2QHT|A Chain A, Structural Basis Of Octanoic Acid Recognition By
Lipoate-Protein Ligase B
pdb|2QHU|A Chain A, Structural Basis Of Octanoic Acid Recognition By
Lipoate-Protein Ligase B
pdb|2QHV|A Chain A, Structural Basis Of Octanoic Acid Recognition By
Lipoate-protein Ligase B
Length = 210
Score = 146 bits (369), Expect = 7e-36, Method: Compositional matrix adjust.
Identities = 73/182 (40%), Positives = 112/182 (61%), Gaps = 4/182 (2%)
Query: 12 LGIVNYSDALKLQEKLVSDRKIHKISDTLLSLQHPPTYTLGKRRTDHNLLISEAELKKLG 71
LG+V Y +A Q+++ + TLL L+HP TLG++ T NLL E+ ++ G
Sbjct: 8 LGLVPYGEAWAYQKRVHREVVAGNRPPTLLLLEHPRVITLGRKATGENLLFPESWYRENG 67
Query: 72 AELHYTQRGGDITFHGPHQAILYPIISLRDIGLGARNYVEKLESTMIEIASLYGVKACPG 131
EL++ +RGGD+T+HGP Q + YPI +G R ++ ++E ++ +A+ YG+ A P
Sbjct: 68 FELYWVERGGDVTYHGPGQLVGYPIFP---VGREVRRFLRQIEEAIVRVAAGYGISAYP- 123
Query: 132 QKGETGIWVGDRKIGAIGVRIQYGITSHGLAFNIDPDLNYFKHIVPCGIADKDVTSLRRE 191
G G+WVG+ K+ AIGV ++ G++ HG A N++ DLN F IVPCG+ K VTSL +
Sbjct: 124 TPGYAGVWVGEDKLCAIGVAVKEGVSFHGFALNVNTDLNDFTVIVPCGLKGKGVTSLEKL 183
Query: 192 TG 193
G
Sbjct: 184 LG 185
>pdb|2QHS|A Chain A, Structural Basis Of Octanoic Acid Recognition By
Lipoate-protein Ligase B
Length = 237
Score = 146 bits (368), Expect = 9e-36, Method: Compositional matrix adjust.
Identities = 73/182 (40%), Positives = 112/182 (61%), Gaps = 4/182 (2%)
Query: 12 LGIVNYSDALKLQEKLVSDRKIHKISDTLLSLQHPPTYTLGKRRTDHNLLISEAELKKLG 71
LG+V Y +A Q+++ + TLL L+HP TLG++ T NLL E+ ++ G
Sbjct: 28 LGLVPYGEAWAYQKRVHREVVAGNRPPTLLLLEHPRVITLGRKATGENLLFPESWYRENG 87
Query: 72 AELHYTQRGGDITFHGPHQAILYPIISLRDIGLGARNYVEKLESTMIEIASLYGVKACPG 131
EL++ +RGGD+T+HGP Q + YPI +G R ++ ++E ++ +A+ YG+ A P
Sbjct: 88 FELYWVERGGDVTYHGPGQLVGYPIFP---VGREVRRFLRQIEEAIVRVAAGYGISAYP- 143
Query: 132 QKGETGIWVGDRKIGAIGVRIQYGITSHGLAFNIDPDLNYFKHIVPCGIADKDVTSLRRE 191
G G+WVG+ K+ AIGV ++ G++ HG A N++ DLN F IVPCG+ K VTSL +
Sbjct: 144 TPGYAGVWVGEDKLCAIGVAVKEGVSFHGFALNVNTDLNDFTVIVPCGLKGKGVTSLEKL 203
Query: 192 TG 193
G
Sbjct: 204 LG 205
>pdb|1W66|A Chain A, Structure Of A Lipoate-protein Ligase B From Mycobacterium
Tuberculosis
Length = 232
Score = 132 bits (333), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 80/192 (41%), Positives = 111/192 (57%), Gaps = 15/192 (7%)
Query: 6 SLQIWRLGIVNYSDALKLQEKLVSDRKIHKISDTLLSLQHPPTYTLGKRRTDHNLLISEA 65
++ + +LG V+Y A +LQ +L +D ++ +DTLL L+HP YT G+R H I
Sbjct: 13 AIDVRQLGTVDYRTAWQLQREL-ADARVAGGADTLLLLEHPAVYTAGRRTETHERPID-- 69
Query: 66 ELKKLGAELHYTQRGGDITFHGPHQAILYPIISLRDIGLGARNYVEKLESTMIEIASLYG 125
G + T RGG IT+HGP Q + YPII L + L NYV +LE ++I++ + G
Sbjct: 70 -----GTPVVDTDRGGKITWHGPGQLVGYPIIGLAEP-LDVVNYVRRLEESLIQVCADLG 123
Query: 126 VKACPGQ-KGETGIWVGDR---KIGAIGVRIQYGITSHGLAFNIDPDLNYFKHIVPCGIA 181
+ A G+ G +G+W+ R K+ AIGVR+ T HG A N D DL F IVPCGI+
Sbjct: 124 LHA--GRVDGRSGVWLPGRPARKVAAIGVRVSRATTLHGFALNCDCDLAAFTAIVPCGIS 181
Query: 182 DKDVTSLRRETG 193
D VTSL E G
Sbjct: 182 DAAVTSLSAELG 193
>pdb|1I6V|C Chain C, Thermus Aquaticus Core Rna Polymerase-Rifampicin Complex
Length = 1118
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 179 GIADKDVTSLRRETGAVRIFNTLEPLDSHKKN 210
G+ D+ V ++R E VR+F L P D KK+
Sbjct: 220 GLLDEAVLAMRPEEAMVRLFTLLRPGDPPKKD 251
>pdb|1HQM|C Chain C, Crystal Structure Of Thermus Aquaticus Core Rna
Polymerase- Includes Complete Structure With Side-Chains
(Except For Disordered Regions)-Further Refined From
Original Deposition-Contains Additional Sequence
Information
Length = 1119
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 179 GIADKDVTSLRRETGAVRIFNTLEPLDSHKKN 210
G+ D+ V ++R E VR+F L P D KK+
Sbjct: 220 GLLDEAVLAMRPEEAMVRLFTLLRPGDPPKKD 251
>pdb|1YNJ|C Chain C, Taq Rna Polymerase-Sorangicin Complex
pdb|1YNN|C Chain C, Taq Rna Polymerase-rifampicin Complex
pdb|2GHO|C Chain C, Recombinant Thermus Aquaticus Rna Polymerase For
Structural Studies
Length = 1119
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 179 GIADKDVTSLRRETGAVRIFNTLEPLDSHKKN 210
G+ D+ V ++R E VR+F L P D KK+
Sbjct: 220 GLLDEAVLAMRPEEAMVRLFTLLRPGDPPKKD 251
>pdb|1L9U|C Chain C, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|L Chain L, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9Z|C Chain C, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 1118
Score = 28.5 bits (62), Expect = 2.9, Method: Composition-based stats.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 179 GIADKDVTSLRRETGAVRIFNTLEPLDSHKKN 210
G+ D+ V ++R E VR+F L P D KK+
Sbjct: 220 GLLDEAVLAMRPEEAMVRLFTLLRPGDPPKKD 251
>pdb|2FMU|A Chain A, Crystal Structure Of A Tat-Interacting Protein Homologue
(Htatip2, Aw111545, Cc3, Tip30) From Mus Musculus At
2.30 A Resolution
Length = 248
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 29/121 (23%), Positives = 46/121 (38%), Gaps = 20/121 (16%)
Query: 34 HKISDTLLSLQHPPTYTLGKRRTDHNLLISEAELKKLGAELHY---TQRGGDITFHGPHQ 90
H + L G R D + ++ AEL K G H+ + RG D
Sbjct: 91 HDVGFCCLGTTRSKAGAEGFVRVDRDYVLKSAELAKAGGCKHFNLLSSRGAD-----KSS 145
Query: 91 AILYPIISLRDIGLGARNYVE-KLESTMIEIASLY--GVKACPGQKGETGIWVGDRKIGA 147
+ LY L + VE K+E + S++ GV C Q+ G W+ + G+
Sbjct: 146 SFLY---------LQVKGEVEAKVEELKFDRLSVFRPGVLLCDRQESRPGEWLARKFFGS 196
Query: 148 I 148
+
Sbjct: 197 L 197
>pdb|1IW7|C Chain C, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|M Chain M, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|C Chain C, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|M Chain M, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|C Chain C, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|M Chain M, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|C Chain C, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|M Chain M, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2O5I|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5I|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Elongation Complex
pdb|2O5J|C Chain C, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2O5J|M Chain M, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog
pdb|2PPB|C Chain C, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|2PPB|M Chain M, Crystal Structure Of The T. Thermophilus Rnap Polymerase
Elongation Complex With The Ntp Substrate Analog And
Antibiotic Streptolydigin
pdb|3DXJ|C Chain C, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|M Chain M, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3EQL|C Chain C, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|M Chain M, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3AOH|C Chain C, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|H Chain H, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOH|M Chain M, Rna Polymerase-Gfh1 Complex (Crystal Type 1)
pdb|3AOI|C Chain C, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|H Chain H, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|3AOI|M Chain M, Rna Polymerase-Gfh1 Complex (Crystal Type 2)
pdb|4G7H|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|C Chain C, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|M Chain M, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4GZY|C Chain C, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
pdb|4GZZ|C Chain C, Crystal Structures Of Bacterial Rna Polymerase Paused
Elongation Complexes
Length = 1119
Score = 27.3 bits (59), Expect = 6.8, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 19/32 (59%)
Query: 179 GIADKDVTSLRRETGAVRIFNTLEPLDSHKKN 210
G+ D+ V ++R E +R+F L P D K++
Sbjct: 220 GLMDESVFAMRPEEALIRLFTLLRPGDPPKRD 251
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
0.320 0.140 0.414
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,632,489
Number of Sequences: 62578
Number of extensions: 265741
Number of successful extensions: 548
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 534
Number of HSP's gapped (non-prelim): 9
length of query: 224
length of database: 14,973,337
effective HSP length: 95
effective length of query: 129
effective length of database: 9,028,427
effective search space: 1164667083
effective search space used: 1164667083
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 49 (23.5 bits)