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= 010057
(519 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4G24|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Mn
pdb|4G26|A Chain A, Crystal Structure Of Proteinaceous Rnase P 1 (Prorp1) From
A. Thaliana With Ca
Length = 501
Score = 32.7 bits (73), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 26/119 (21%), Positives = 51/119 (42%), Gaps = 9/119 (7%)
Query: 112 SNAGDVDGAVNIWEEMKLKECYPTIVSYTAYMKILFLNDRVKEAT---------DVYKEM 162
S GDV A+ +++E + + Y + + L + E++ D++K+M
Sbjct: 37 SKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQM 96
Query: 163 IQRGLPPNCYTYTVLMEYLVRAGKYEEALEIFSKMQEAGVQPDKAACNILIEKCCKAGE 221
I + PN T+T V E A ++ +M+ G+QP + + C+ G+
Sbjct: 97 IVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGD 155
>pdb|1J8M|F Chain F, Signal Recognition Particle Conserved Gtpase Domain From
A. Ambivalens
Length = 297
Score = 31.2 bits (69), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/119 (25%), Positives = 54/119 (45%), Gaps = 14/119 (11%)
Query: 106 SVMHWLSNAGDVDGAVNIWEEMKLKECYPTIVSYTAYMKILFLNDRVKEATDVYKEMIQR 165
+V +L+ + D AV + +KE +++S +K++F T+ KE ++
Sbjct: 10 TVRKFLTGSSSYDKAVEDF----IKELQKSLISADVNVKLVF------SLTNKIKERLKN 59
Query: 166 GLPPNCYTYTVLMEYLVRAGKYEEALEIFSKMQEAGVQPDKAACNILIEKCCKAGETRT 224
PP TY E+ ++ Y+E +F +E V PDK I++ G+T T
Sbjct: 60 EKPP---TYIERREWFIKI-VYDELSNLFGGDKEPKVIPDKIPYVIMLVGVQGTGKTTT 114
>pdb|3NYI|A Chain A, The Crystal Structure Of A Fat Acid (Stearic Acid)-Binding
Protein From Eubacterium Ventriosum Atcc 27560.
pdb|3NYI|B Chain B, The Crystal Structure Of A Fat Acid (Stearic Acid)-Binding
Protein From Eubacterium Ventriosum Atcc 27560
Length = 297
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 28/60 (46%), Gaps = 7/60 (11%)
Query: 152 VKEATDVYKEMIQRGLPPNCYTYTVLMEYLVRAGKYEEALEIFSKMQEAGVQPDKAACNI 211
V+ DV++ +++G P C+T T L +G Y A+ S + E PD C I
Sbjct: 70 VESYADVFRSFVEQGFPVVCFTITTLF-----SGSYNSAINAKSLVLED--YPDANICVI 122
>pdb|3GQ2|A Chain A, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GQ2|B Chain B, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GRL|A Chain A, Crystal Structure Of The Monomer Of The P115 Tether
Globular Head Domain
Length = 651
Score = 30.4 bits (67), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 12/117 (10%)
Query: 407 SARRPVPAAKIFSLLPEDQKCTATYTAL---IGVYFSAGSADKALKIY-KTMCRKGIHPS 462
SA P +I L E+++ AL I +YF+ D +L+ Y K ++ I
Sbjct: 516 SANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFN----DNSLETYMKEKLKQLIEKR 571
Query: 463 LGTFNVLLAGLEKLGRVSDAEIYRKEKKSIQADALSKDAVPMEEKICDLLYGGDGVL 519
+G N + EKLG +S E+Y + + Q + S + + + + L+ +GV+
Sbjct: 572 IGKENFI----EKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVI 624
>pdb|2W3C|A Chain A, Globular Head Region Of The Human General Vesicular
Transport Factor P115
Length = 577
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 54/117 (46%), Gaps = 12/117 (10%)
Query: 407 SARRPVPAAKIFSLLPEDQKCTATYTAL---IGVYFSAGSADKALKIY-KTMCRKGIHPS 462
SA P +I L E+++ AL I +YF+ D +L+ Y K ++ I
Sbjct: 464 SANVPFLTGQIAENLGEEEQLVQGLCALLLGISIYFN----DNSLESYMKEKLKQLIEKR 519
Query: 463 LGTFNVLLAGLEKLGRVSDAEIYRKEKKSIQADALSKDAVPMEEKICDLLYGGDGVL 519
+G N + EKLG +S E+Y + + Q + S + + + + L+ +GV+
Sbjct: 520 IGKENFI----EKLGFISKHELYSRASQKPQPNFPSPEYMIFDHEFTKLVKELEGVI 572
>pdb|3NRU|A Chain A, Ligand Binding Domain Of Epha7
pdb|3NRU|B Chain B, Ligand Binding Domain Of Epha7
pdb|3NRU|C Chain C, Ligand Binding Domain Of Epha7
pdb|3NRU|D Chain D, Ligand Binding Domain Of Epha7
pdb|3NRU|E Chain E, Ligand Binding Domain Of Epha7
pdb|3NRU|F Chain F, Ligand Binding Domain Of Epha7
pdb|3NRU|G Chain G, Ligand Binding Domain Of Epha7
pdb|3NRU|H Chain H, Ligand Binding Domain Of Epha7
pdb|3NRU|I Chain I, Ligand Binding Domain Of Epha7
pdb|3NRU|J Chain J, Ligand Binding Domain Of Epha7
pdb|3NRU|K Chain K, Ligand Binding Domain Of Epha7
pdb|3NRU|L Chain L, Ligand Binding Domain Of Epha7
Length = 187
Score = 29.3 bits (64), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 13/98 (13%)
Query: 17 WDSAQDLLKNL-PIKWDSYTVNQVLKTHPPMEKAWLFFNWVSRS---RGFNHDRFTY--- 69
W+ L +N PI+ +Y V QV++ P + WL NW+S+ R F +FT
Sbjct: 26 WEEISGLDENYTPIR--TYQVCQVME---PNQNNWLRTNWISKGNAQRIFVELKFTLRDC 80
Query: 70 TTMLDIFGEAKRISSMKYVFELMQEKGINIDAVTYTSV 107
++ + G K ++ Y +E + G NI Y +
Sbjct: 81 NSLPGVLGTCKETFNL-YYYETDYDTGRNIRENLYVKI 117
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
0.321 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,571,100
Number of Sequences: 62578
Number of extensions: 581216
Number of successful extensions: 1343
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1338
Number of HSP's gapped (non-prelim): 12
length of query: 519
length of database: 14,973,337
effective HSP length: 103
effective length of query: 416
effective length of database: 8,527,803
effective search space: 3547566048
effective search space used: 3547566048
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)