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= 003432
(820 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 = 6e-68, Method: Compositional matrix adjust.
Identities = 152/418 (36%), Positives = 242/418 (57%), Gaps = 51/418 (12%)
Query: 140 YLSPNELELVRRALMLAFEAHDGQKRRSGEPFIIHPVEVARILGELELDWESIAAGLLHD 199
Y++ + V++AL A AH Q R+SGEP+I+HP++VA IL +L LD ++A G LHD
Sbjct: 19 YMNETDAAFVKKALDYATAAHFYQVRKSGEPYIVHPIQVAGILADLHLDAVTVACGFLHD 78
Query: 200 TVEDTNVVTFERIEEEFGATVRRIVEGETKVSKLGKLKCKNENHSVQDVKADDLRQMFLA 259
VEDT++ T + IE +FG VR IV+G V+KLGK++ K+ + A++ R+M +A
Sbjct: 79 VVEDTDI-TLDNIEFDFGKDVRDIVDG---VTKLGKVEYKSHEEQL----AENHRKMLMA 130
Query: 260 MTEEVRVIIVKLADRLHNMRTLSHMPPHKQSSIATETLQVFAPLAKLLGMYQIKSELENL 319
M++++RVI+VKLADRLHNMRTL H+ KQ I+ ET++++APLA LG+ +IK ELE+L
Sbjct: 131 MSKDIRVILVKLADRLHNMRTLKHLRKDKQERISRETMEIYAPLAHRLGISRIKWELEDL 190
Query: 320 SFMYTNAEDYAKVKRRVADLYKEHEKELEE-ANKILMKKIEDDQFLDLMTVKTEIRSVCK 378
+F Y N ++ K+ + + +E E +++ KI E F D + K
Sbjct: 191 AFRYLNETEFYKISHMMNEKRREREALVDDIVTKIKSYTTEQGLFGD-------VYGRPK 243
Query: 379 EPYSIYKAVLKSRGSINEVNQIAQLRIIIKPKPCSGVGPLCSPQQICYHVLGLVHGIWTP 438
YSIY+ + + +++ + +R +++ Q Y ++G +H +W P
Sbjct: 244 HIYSIYRKMRDKKKRFDQIFDLIAIRCVME------------TQSDVYAMVGYIHELWRP 291
Query: 439 IPRAMKDYIATPKPNGYQSLHTTLIPFLYESMFRLEVQIRTEEMDLIAERGIAAHYSGRV 498
+P KDYIA PK NGYQS+HTT +Y +E+QIRT+EM +AE G+AAH++ +
Sbjct: 292 MPGRFKDYIAAPKANGYQSIHTT----VYGPKGPIEIQIRTKEMHQVAEYGVAAHWAYK- 346
Query: 499 FVTGLVGHARPNGRSPRGKTVCLNNANIALRISWLNAIREWQEEFVGNMTSREFVDTI 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 = 72.4 bits (176), Expect = 9e-13, Method: Composition-based stats.
Identities = 29/70 (41%), Positives = 49/70 (70%)
Query: 559 DLLGSRVFVFTPRGEIKNLPKGATVVDYAYMIHTEIGNKMVAAKVNGNLVSPTHVLANAE 618
DL VFVFTP+G++ +LP G+TV+D+AY IH+ +GN+ + AKV+G +V + + E
Sbjct: 2 DLAPEEVFVFTPKGDVISLPIGSTVIDFAYAIHSAVGNRXIGAKVDGRIVPIDYKVKTGE 61
Query: 619 VVEIITYNAL 628
+++++T L
Sbjct: 62 IIDVLTTKEL 71
>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 = 70.5 bits (171), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 30/65 (46%), Positives = 48/65 (73%)
Query: 564 RVFVFTPRGEIKNLPKGATVVDYAYMIHTEIGNKMVAAKVNGNLVSPTHVLANAEVVEII 623
V VFTP+GEIK LP+GAT +D+AY +H+++G+ + AKVN LV ++VL + + VE++
Sbjct: 2 EVMVFTPKGEIKRLPQGATALDFAYSLHSDLGDHCIGAKVNHKLVPLSYVLNSGDQVEVL 61
Query: 624 TYNAL 628
+ +L
Sbjct: 62 SSKSL 66
>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 = 67.8 bits (164), Expect = 2e-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 = 5e-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 = 0.060, 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
>pdb|2PSX|A Chain A, Crystal Structure Of Human Kallikrein 5 In Complex With
Leupeptin
pdb|2PSY|A Chain A, Crystal Structure Of Human Kallikrein 5 In Complex With
Leupeptin And Zinc
Length = 227
Score = 29.6 bits (65), Expect = 6.9, Method: Composition-based stats.
Identities = 23/82 (28%), Positives = 32/82 (39%)
Query: 52 THPAHSSSLSLGPTGRRNRINSRCEAFDVGSWCTEGSDLVLLGKLPRSSLLHVACKRWRL 111
+HP HS+ L L RR R +V S C L+ + V +
Sbjct: 80 SHPGHSNDLMLIKLNRRIRPTKDVRPINVSSHCPSAGTKCLVSGWGTTKSPQVHFPKVLQ 139
Query: 112 CLSPSVSSDAFKEDSPERLWED 133
CL+ SV S ED+ R +D
Sbjct: 140 CLNISVLSQKRCEDAYPRQIDD 161
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 0.132 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,436,301
Number of Sequences: 62578
Number of extensions: 945432
Number of successful extensions: 2321
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 2304
Number of HSP's gapped (non-prelim): 16
length of query: 820
length of database: 14,973,337
effective HSP length: 107
effective length of query: 713
effective length of database: 8,277,491
effective search space: 5901851083
effective search space used: 5901851083
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: 56 (26.2 bits)