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= 006686
(635 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1VJ7|A Chain A, Crystal Structure Of The Bifunctional Catalytic Fragment
Of Relseq, The RelaSPOT HOMOLOG FROM STREPTOCOCCUS
EQUISIMILIS.
pdb|1VJ7|B Chain B, Crystal Structure Of The Bifunctional Catalytic Fragment
Of Relseq, The RelaSPOT HOMOLOG FROM STREPTOCOCCUS
EQUISIMILIS
Length = 393
Score = 255 bits (652), Expect = 4e-68, Method: Compositional matrix adjust.
Identities = 152/419 (36%), Positives = 242/419 (57%), Gaps = 51/419 (12%)
Query: 139 SYLSPNELELVRRALMLAFEAHDGQKRRSGEPFIIHPVEVARILGELELDWESIAAGLLH 198
Y++ + V++AL A AH Q R+SGEP+I+HP++VA IL +L LD ++A G LH
Sbjct: 18 KYMNETDAAFVKKALDYATAAHFYQVRKSGEPYIVHPIQVAGILADLHLDAVTVACGFLH 77
Query: 199 DTVEDTNVVTFERIEEEFGATVRRIVEGETKVSKLGKLKCKNENHSVQDVKADDLRQMFL 258
D VEDT++ T + IE +FG VR IV+G V+KLGK++ K+ + A++ R+M +
Sbjct: 78 DVVEDTDI-TLDNIEFDFGKDVRDIVDG---VTKLGKVEYKSHEEQL----AENHRKMLM 129
Query: 259 AMTEEVRVIIVKLADRLHNMRTLSHMPPHKQSSIATETLQVFAPLAKLLGMYQIKSELEN 318
AM++++RVI+VKLADRLHNMRTL H+ KQ I+ ET++++APLA LG+ +IK ELE+
Sbjct: 130 AMSKDIRVILVKLADRLHNMRTLKHLRKDKQERISRETMEIYAPLAHRLGISRIKWELED 189
Query: 319 LSFMYTNAEDYAKVKRRVADLYKEHEKELEE-ANKILMKKIEDDQFLDLMTVKTEIRSVC 377
L+F Y N ++ K+ + + +E E +++ KI E F D +
Sbjct: 190 LAFRYLNETEFYKISHMMNEKRREREALVDDIVTKIKSYTTEQGLFGD-------VYGRP 242
Query: 378 KEPYSIYKAVLKSRGSINEVNQIAQLRIIIKPKPCSGVGPLCSPQQICYHVLGLVHGIWT 437
K YSIY+ + + +++ + +R +++ Q Y ++G +H +W
Sbjct: 243 KHIYSIYRKMRDKKKRFDQIFDLIAIRCVME------------TQSDVYAMVGYIHELWR 290
Query: 438 PIPRAMKDYIATPKPNGYQSLHTTLIPFLYESMFRLEVQIRTEEMDLIAERGIAAHYSGR 497
P+P KDYIA PK NGYQS+HTT +Y +E+QIRT+EM +AE G+AAH++ +
Sbjct: 291 PMPGRFKDYIAAPKANGYQSIHTT----VYGPKGPIEIQIRTKEMHQVAEYGVAAHWAYK 346
Query: 498 VFVTGLVGHARPNGRSPRGKTVCLNNANIALRISWLNAIREWQEEFVGNMTSREFVDTI 556
+ RGK +N A + ++W+ + E Q+ N + +FVD++
Sbjct: 347 --------------KGVRGK---VNQAEQKVGMNWIKELVELQD--ASNGDAVDFVDSL 386
>pdb|3HVZ|A Chain A, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
pdb|3HVZ|B Chain B, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
pdb|3HVZ|C Chain C, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
pdb|3HVZ|D Chain D, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
pdb|3HVZ|E Chain E, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
pdb|3HVZ|F Chain F, Crystal Structure Of The Tgs Domain Of The Clolep_03100
Protein From Clostridium Leptum, Northeast Structural
Genomics Consortium Target Qlr13a
Length = 78
Score = 71.6 bits (174), Expect = 1e-12, Method: Composition-based stats.
Identities = 28/66 (42%), Positives = 48/66 (72%)
Query: 559 DLLGSRVFVFTPRGEIKNLPKGATVVDYAYMIHTEIGNKMVAAKVNGNLVSPTHVLANAE 618
DL VFVFTP+G++ +LP G+TV+D+AY IH+ +GN+ + AKV+G +V + + E
Sbjct: 2 DLAPEEVFVFTPKGDVISLPIGSTVIDFAYAIHSAVGNRXIGAKVDGRIVPIDYKVKTGE 61
Query: 619 VVEIIT 624
+++++T
Sbjct: 62 IIDVLT 67
>pdb|2KMM|A Chain A, Solution Nmr Structure Of The Tgs Domain Of Pg1808 From
Porphyromonas Gingivalis. Northeast Structural Genomics
Consortium Target Pgr122a (418-481)
Length = 73
Score = 68.9 bits (167), Expect = 7e-12, Method: Composition-based stats.
Identities = 29/60 (48%), Positives = 46/60 (76%)
Query: 565 VFVFTPRGEIKNLPKGATVVDYAYMIHTEIGNKMVAAKVNGNLVSPTHVLANAEVVEIIT 624
V VFTP+GEIK LP+GAT +D+AY +H+++G+ + AKVN LV ++VL + + VE+++
Sbjct: 3 VMVFTPKGEIKRLPQGATALDFAYSLHSDLGDHCIGAKVNHKLVPLSYVLNSGDQVEVLS 62
>pdb|3NR1|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
pdb|3NR1|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
Length = 178
Score = 68.6 bits (166), Expect = 1e-11, Method: Composition-based stats.
Identities = 53/140 (37%), Positives = 69/140 (49%), Gaps = 18/140 (12%)
Query: 155 LAFEAHDGQKRR--SGEPFIIHPVEVARILGELE--LDWESIAAGLLHDTVEDTNVVTFE 210
A H Q+R+ G P+I HP+ VARIL D + A LLHDTVEDT+ T +
Sbjct: 13 FAARKHRQQRRKDPEGTPYINHPIGVARILTHEAGITDIVVLQAALLHDTVEDTDT-TLD 71
Query: 211 RIEEEFGATVRRIVEGETKVSKLGKLKCKNENHSVQDVKADDLRQMFLAMTEEVRVIIVK 270
+E FGA VRR+VE T L KL+ K Q+ A +VK
Sbjct: 72 EVELHFGAQVRRLVEEVTDDKTLPKLERKR-------------LQVEQAPHSSPGAKLVK 118
Query: 271 LADRLHNMRTLSHMPPHKQS 290
LAD+L+N+R L+ P S
Sbjct: 119 LADKLYNLRDLNRCTPEGWS 138
>pdb|3NQW|A Chain A, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
pdb|3NQW|B Chain B, A Metazoan Ortholog Of Spot Hydrolyzes Ppgpp And Plays A
Role In Starvation Responses
Length = 179
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/138 (31%), Positives = 62/138 (44%), Gaps = 18/138 (13%)
Query: 153 LMLAFEAHDGQKRRSGE--PFIIHPVEVARILG--ELELDWESIAAGLLHDTVEDTNVVT 208
L A H Q+R+ + P++ H + V+ IL D + A LLHD VEDT+ +
Sbjct: 13 LQYAAFKHRQQRRKDPQETPYVNHVINVSTILSVEACITDEGVLMAALLHDVVEDTDA-S 71
Query: 209 FERIEEEFGATVRRIVEGETKVSKLGKLKCKNENHSVQDVKADDLRQMFLAMTEEVRVII 268
FE +E+ FG V +V T L K + K Q+ A R +
Sbjct: 72 FEDVEKLFGPDVCGLVREVTDDKSLEKQERKR-------------LQIENAAKSSCRAKL 118
Query: 269 VKLADRLHNMRTLSHMPP 286
+KLAD+L N+R L P
Sbjct: 119 IKLADKLDNLRDLQVNTP 136
>pdb|1NYQ|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYQ|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With An Analogue Of Threonyl
Adenylate
pdb|1NYR|A Chain A, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
pdb|1NYR|B Chain B, Structure Of Staphylococcus Aureus Threonyl-Trna
Synthetase Complexed With Atp
Length = 645
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 25/55 (45%)
Query: 570 PRGEIKNLPKGATVVDYAYMIHTEIGNKMVAAKVNGNLVSPTHVLANAEVVEIIT 624
P G K KG T D A I + K VA K NG LV T L +EI+T
Sbjct: 9 PDGNKKAFDKGTTTEDIAQSISPGLRKKAVAGKFNGQLVDLTKPLETDGSIEIVT 63
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 0.135 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,067,652
Number of Sequences: 62578
Number of extensions: 738089
Number of successful extensions: 1779
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 1766
Number of HSP's gapped (non-prelim): 8
length of query: 635
length of database: 14,973,337
effective HSP length: 105
effective length of query: 530
effective length of database: 8,402,647
effective search space: 4453402910
effective search space used: 4453402910
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: 54 (25.4 bits)