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= psy1687
(107 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3J16|B Chain B, Models Of Ribosome-Bound Dom34p And Rli1p And Their
Ribosomal Binding Partners
Length = 608
Score = 135 bits (339), Expect = 7e-33, Method: Compositional matrix adjust.
Identities = 64/97 (65%), Positives = 78/97 (80%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+VI+RFILH KKT F+VEHDFIMATYL+D+VIVFEG PS + A AP++LL G N+FL
Sbjct: 508 KVIRRFILHNKKTAFIVEHDFIMATYLADKVIVFEGIPSKNAHARAPESLLTGCNRFLKN 567
Query: 69 LGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFYE 105
L +TFRRDPN+FRPRINK +S D EQK +G YFF +
Sbjct: 568 LNVTFRRDPNSFRPRINKLDSQMDKEQKSSGNYFFLD 604
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 44/98 (44%), Gaps = 8/98 (8%)
Query: 11 IKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLS--- 67
I R +L K VEHD + YLSD V + G PS+ + P ++ G+N FL
Sbjct: 263 IIRSLLAPTKYVICVEHDLSVLDYLSDFVCIIYGVPSVYGVVTLPASVREGINIFLDGHI 322
Query: 68 -LLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFFY 104
+ FR + FR ++ +D + A + F Y
Sbjct: 323 PAENLRFRTEALQFR----IADATEDLQNDSASRAFSY 356
>pdb|3BK7|A Chain A, Structure Of The Complete Abce1RNAASE-L Inhibitor Protein
From Pyrococcus Abysii
Length = 607
Score = 104 bits (259), Expect = 1e-23, Method: Composition-based stats.
Identities = 48/95 (50%), Positives = 64/95 (67%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+ I+ + +KT VVEHD +M Y+SDR+IVFEG P A P + GMN+FL+
Sbjct: 512 RAIRHLMEKNEKTALVVEHDVLMIDYVSDRLIVFEGEPGRHGRALPPMGMREGMNRFLAS 571
Query: 69 LGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
+GITFRRDP++ RPR NK SVKD EQK G+Y++
Sbjct: 572 VGITFRRDPDSGRPRANKEGSVKDREQKARGEYYY 606
Score = 45.8 bits (107), Expect = 5e-06, Method: Composition-based stats.
Identities = 32/97 (32%), Positives = 50/97 (51%), Gaps = 9/97 (9%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+VI+R + + K VVEHD + YLSD + V G P + + + P+ NG+N+FL
Sbjct: 269 RVIRR-LANEGKAVLVVEHDLAVLDYLSDVIHVVYGEPGVYGIFSKPKGTRNGINEFLQ- 326
Query: 69 LGITFRRDPN-NFRP---RINKNNSVKDCEQKRAGQY 101
+ +D N FRP R K + D E++ +Y
Sbjct: 327 ---GYLKDENVRFRPYEIRFTKLSERVDVERETLVEY 360
>pdb|3J15|B Chain B, Model Of Ribosome-Bound Archaeal Pelota And Abce1
Length = 593
Score = 104 bits (259), Expect = 1e-23, Method: Composition-based stats.
Identities = 48/95 (50%), Positives = 64/95 (67%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+ I+ + +KT VVEHD +M Y+SDR+IVFEG P A P + GMN+FL+
Sbjct: 498 RAIRHLMEKNEKTALVVEHDVLMIDYVSDRLIVFEGEPGRHGRALPPMGMREGMNRFLAS 557
Query: 69 LGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
+GITFRRDP++ RPR NK SVKD EQK G+Y++
Sbjct: 558 VGITFRRDPDSGRPRANKEGSVKDREQKARGEYYY 592
Score = 45.8 bits (107), Expect = 6e-06, Method: Composition-based stats.
Identities = 32/97 (32%), Positives = 50/97 (51%), Gaps = 9/97 (9%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+VI+R + + K VVEHD + YLSD + V G P + + + P+ NG+N+FL
Sbjct: 255 RVIRR-LANEGKAVLVVEHDLAVLDYLSDVIHVVYGEPGVYGIFSKPKGTRNGINEFLQ- 312
Query: 69 LGITFRRDPN-NFRP---RINKNNSVKDCEQKRAGQY 101
+ +D N FRP R K + D E++ +Y
Sbjct: 313 ---GYLKDENVRFRPYEIRFTKLSERVDVERETLVEY 346
>pdb|1YQT|A Chain A, Rnase-L Inhibitor
Length = 538
Score = 95.5 bits (236), Expect = 7e-21, Method: Composition-based stats.
Identities = 45/95 (47%), Positives = 58/95 (61%)
Query: 9 QVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSL 68
+ I+ +KT VVEHD + Y+SDR+ VFEG P A P G N+FL+
Sbjct: 442 RAIRHLXEKNEKTALVVEHDVLXIDYVSDRLXVFEGEPGKYGRALPPXGXREGXNRFLAS 501
Query: 69 LGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYFF 103
+GITFRRDP+ RPR NK SVKD EQK G+Y++
Sbjct: 502 IGITFRRDPDTGRPRANKEGSVKDREQKEKGEYYY 536
Score = 43.1 bits (100), Expect = 4e-05, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 35/64 (54%), Gaps = 5/64 (7%)
Query: 20 KTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFLSLLGITFRRDPN- 78
K+ VVEHD + YLSD + V G P + + + P+ NG+N+FL + +D N
Sbjct: 209 KSVLVVEHDLAVLDYLSDIIHVVYGEPGVYGIFSQPKGTRNGINEFLR----GYLKDENV 264
Query: 79 NFRP 82
FRP
Sbjct: 265 RFRP 268
>pdb|3OZX|A Chain A, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
pdb|3OZX|B Chain B, Crystal Structure Of Abce1 Of Sulfolubus Solfataricus
(-Fes Domain)
Length = 538
Score = 87.0 bits (214), Expect = 2e-18, Method: Composition-based stats.
Identities = 41/98 (41%), Positives = 58/98 (59%)
Query: 5 HLTLQVIKRFILHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNK 64
++ + IKR K F+++HD + Y++DR+IVF+G P + LA +P L GMN+
Sbjct: 422 YIVAKAIKRVTRERKAVTFIIDHDLSIHDYIADRIIVFKGEPEKAGLATSPVTLKTGMNE 481
Query: 65 FLSLLGITFRRDPNNFRPRINKNNSVKDCEQKRAGQYF 102
FL L +TFRRD RPR+NK S D QK G Y+
Sbjct: 482 FLRELEVTFRRDAETGRPRVNKIGSYLDRVQKERGDYY 519
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 24 VVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFL 66
VV+HD I+ YL+D + + G S+ + G+N FL
Sbjct: 192 VVDHDLIVLDYLTDLIHIIYGESSVYGRVSKSYAARVGINNFL 234
>pdb|1QGU|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QGU|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae,
Dithionite-Reduced State
pdb|1QH8|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH8|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae, As-
Crystallized (Mixed Oxidation) State
pdb|1QH1|B Chain B, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1QH1|D Chain D, Nitrogenase Mofe Protein From Klebsiella Pneumoniae,
Phenosafranin Oxidized State
pdb|1H1L|B Chain B, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
pdb|1H1L|D Chain D, Nitrogenase Mo-Fe Protein From Klebsiella Pneumoniae, Nifv
Mutant
Length = 519
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 16 LHAKKTGFVVEHDFIMATYLSDRVIVFEGSPSISTLANAPQNLLNGMNKFL 66
LH KK G + DF+M L+ ++ P++ NA + MNK L
Sbjct: 358 LHGKKFGLYGDPDFVMG--LTRFLLELGCEPTVILSHNANKRWQKAMNKML 406
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
0.325 0.140 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,056,085
Number of Sequences: 62578
Number of extensions: 109395
Number of successful extensions: 262
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 250
Number of HSP's gapped (non-prelim): 13
length of query: 107
length of database: 14,973,337
effective HSP length: 72
effective length of query: 35
effective length of database: 10,467,721
effective search space: 366370235
effective search space used: 366370235
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)