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= psy16982
(116 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z3H|A Chain A, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
pdb|1Z3H|B Chain B, The Exportin Cse1 In Its Cargo-free, Cytoplasmic State
Length = 968
Score = 50.4 bits (119), Expect = 3e-07, Method: Composition-based stats.
Identities = 28/118 (23%), Positives = 58/118 (49%), Gaps = 8/118 (6%)
Query: 1 MMSEVDMPV--RQAGVVYLKNLITNQWVEKEVDPGTPLAFSLHEQDKAMIRDAIVDAVVM 58
+++ ++P+ R AG ++ KN I +WV++ + P + +I+ IV ++
Sbjct: 43 VIASTNLPLSTRLAGALFFKNFIKRKWVDENGNHLLP------ANNVELIKKEIVPLMIS 96
Query: 59 APEVIRVQLAVCVSNIVKHDFPGKWTQIVDKVSIYLQNPDATPWFGALLCLYQLVKNY 116
P ++VQ+ +S+I DFP +W ++ ++ L N D G L + + K +
Sbjct: 97 LPNNLQVQIGEAISSIADSDFPDRWPTLLSDLASRLSNDDMVTNKGVLTVAHSIFKRW 154
>pdb|1WA5|C Chain C, Crystal Structure Of The Exportin Cse1p Complexed With Its
Cargo (Kap60p) And Rangtp
Length = 960
Score = 50.1 bits (118), Expect = 3e-07, Method: Composition-based stats.
Identities = 28/118 (23%), Positives = 58/118 (49%), Gaps = 8/118 (6%)
Query: 1 MMSEVDMPV--RQAGVVYLKNLITNQWVEKEVDPGTPLAFSLHEQDKAMIRDAIVDAVVM 58
+++ ++P+ R AG ++ KN I +WV++ + P + +I+ IV ++
Sbjct: 43 VIASTNLPLSTRLAGALFFKNFIKRKWVDENGNHLLP------ANNVELIKKEIVPLMIS 96
Query: 59 APEVIRVQLAVCVSNIVKHDFPGKWTQIVDKVSIYLQNPDATPWFGALLCLYQLVKNY 116
P ++VQ+ +S+I DFP +W ++ ++ L N D G L + + K +
Sbjct: 97 LPNNLQVQIGEAISSIADSDFPDRWPTLLSDLASRLSNDDMVTNKGVLTVAHSIFKRW 154
>pdb|1GB9|A Chain A, Crystal Structure Of Mutant Human Lysozyme Substituted At
The Surface Positions
Length = 130
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 31 DPGTPLAF-SLHEQDKAMIRDAIVDAVVMAPEVIR 64
D TP AF + H A+++D I DAV A V+R
Sbjct: 67 DGKTPGAFNACHLSCSALLQDNIADAVACAKRVVR 101
>pdb|1VF5|C Chain C, Crystal Structure Of Cytochrome B6f Complex From
M.Laminosus
pdb|1VF5|P Chain P, Crystal Structure Of Cytochrome B6f Complex From
M.Laminosus
pdb|2D2C|C Chain C, Crystal Structure Of Cytochrome B6f Complex With Dbmib
From M. Laminosus
pdb|2D2C|P Chain P, Crystal Structure Of Cytochrome B6f Complex With Dbmib
From M. Laminosus
pdb|2E74|C Chain C, Crystal Structure Of The Cytochrome B6f Complex From
M.Laminosus
pdb|2E75|C Chain C, Crystal Structure Of The Cytochrome B6f Complex With
2-nonyl-4- Hydroxyquinoline N-oxide (nqno) From
M.laminosus
pdb|2E76|C Chain C, Crystal Structure Of The Cytochrome B6f Complex With
Tridecyl- Stigmatellin (Tds) From M.Laminosus
pdb|4H0L|C Chain C, Cytochrome B6f Complex Crystal Structure From
Mastigocladus Laminosus With N-side Inhibitor Nqno
pdb|4H13|C Chain C, Crystal Structure Of The Cytochrome B6f Complex From
Mastigocladus Laminosus With Tds
Length = 289
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/65 (27%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 52 IVDAVVMAPEVIRVQLAVCVSNIVKHDFP--GKWTQIVDKVSIYLQNPDATPWFGALLCL 109
+VD + PE+I + + + P G + Q D I LQ+P+ W A +CL
Sbjct: 207 VVDTIPAGPELIVSEGQAVKAGEALTNNPNVGGFGQ--DDTEIVLQDPNRVKWMIAFICL 264
Query: 110 YQLVK 114
L +
Sbjct: 265 VMLAQ 269
>pdb|4G1G|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1G|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1L|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1L|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1O|A Chain A, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
pdb|4G1O|B Chain B, Crystal Structure Of Newcastle Disease Virus Matrix
Protein
Length = 364
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 17 LKNLITNQWVEKEVDPGTPLAFSLHEQD 44
L NL N ++ EVDP +PL SL + D
Sbjct: 201 LYNLALNVTIDVEVDPKSPLVKSLSKSD 228
>pdb|3NXS|A Chain A, Crystal Structure Of LaoAO TRANSPORT SYSTEM FROM
MYCOBACTERIUM Smegmatis Bound To Gdp
Length = 329
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 46 AMIRDAIVDAVVMAPEVIRVQ 66
+M+RDA++D V+ PEV R++
Sbjct: 283 SMVRDAVLDRVMNHPEVRRIR 303
>pdb|3MSV|A Chain A, The Hypoxic Regulator Of Sterol Synthesis Nro1 Is A
Nuclear Import Adaptor
pdb|3MSV|B Chain B, The Hypoxic Regulator Of Sterol Synthesis Nro1 Is A
Nuclear Import Adaptor
Length = 393
Score = 25.8 bits (55), Expect = 5.9, Method: Composition-based stats.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 19 NLITNQWVEKEVDPGTPLAFSLHEQDKAM 47
++IT W++ VDP TP + L Q+ +
Sbjct: 259 SIITALWLKSVVDPNTPAYYKLIAQEAVL 287
>pdb|4B8Z|A Chain A, Crystal Structure Of Human Gdp-l-fucose Synthase With
Bound Nadp And Gdp, Rhombohedral Crystal Form
pdb|4B8Z|B Chain B, Crystal Structure Of Human Gdp-l-fucose Synthase With
Bound Nadp And Gdp, Rhombohedral Crystal Form
pdb|4B8Z|C Chain C, Crystal Structure Of Human Gdp-l-fucose Synthase With
Bound Nadp And Gdp, Rhombohedral Crystal Form
pdb|4B8Z|D Chain D, Crystal Structure Of Human Gdp-l-fucose Synthase With
Bound Nadp And Gdp, Rhombohedral Crystal Form
Length = 320
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 11/81 (13%)
Query: 25 WVEKEVDPGTPLAFSLHEQDKAMIR---DAIVDAVVMAPEVIRVQLAVCVSNIVKHDFPG 81
WV +E + P+ S+ E+D+ I+ +A+V+A+ EV + K D
Sbjct: 229 WVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEV--------TFDTTKSDGQF 280
Query: 82 KWTQIVDKVSIYLQNPDATPW 102
K T K+ YL + TP+
Sbjct: 281 KKTASNSKLRTYLPDFRFTPF 301
>pdb|4B8W|A Chain A, Crystal Structure Of Human Gdp-L-Fucose Synthase With
Bound Nadp And Gdp, Tetragonal Crystal Form
pdb|4B8W|B Chain B, Crystal Structure Of Human Gdp-L-Fucose Synthase With
Bound Nadp And Gdp, Tetragonal Crystal Form
Length = 319
Score = 25.8 bits (55), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 11/81 (13%)
Query: 25 WVEKEVDPGTPLAFSLHEQDKAMIR---DAIVDAVVMAPEVIRVQLAVCVSNIVKHDFPG 81
WV +E + P+ S+ E+D+ I+ +A+V+A+ EV + K D
Sbjct: 228 WVLREYNEVEPIILSVGEEDEVSIKEAAEAVVEAMDFHGEV--------TFDTTKSDGQF 279
Query: 82 KWTQIVDKVSIYLQNPDATPW 102
K T K+ YL + TP+
Sbjct: 280 KKTASNSKLRTYLPDFRFTPF 300
>pdb|3GHF|A Chain A, Crystal Structure Of The Septum Site-Determining Protein
Minc From Salmonella Typhimurium
Length = 120
Score = 25.4 bits (54), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 2/47 (4%)
Query: 40 LHEQDKAMIRDAIVDAVVMAPEVIRVQLAVCVSNIVKHDFPGKWTQI 86
LHE + +IR A+ D + AP ++ A V N+ + P W ++
Sbjct: 22 LHEAEPEVIRQALEDKIAQAPAFLK--HAPVVINVSGLESPVNWPEL 66
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
0.322 0.136 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,510,723
Number of Sequences: 62578
Number of extensions: 126090
Number of successful extensions: 446
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 436
Number of HSP's gapped (non-prelim): 12
length of query: 116
length of database: 14,973,337
effective HSP length: 79
effective length of query: 37
effective length of database: 10,029,675
effective search space: 371097975
effective search space used: 371097975
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)