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= psy13624
(187 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2JX0|A Chain A, The Paxillin-Binding Domain (Pbd) Of G Protein Coupled
Receptor (Gpcr)-Kinase (Grk) Interacting Protein 1
(Git1)
Length = 135
Score = 83.6 bits (205), Expect = 7e-17, Method: Compositional matrix adjust.
Identities = 47/118 (39%), Positives = 75/118 (63%), Gaps = 16/118 (13%)
Query: 80 MPQSEEVVRRTDQVTKRIQELAAHMRSSD--KCHSFVPHAERIRIAVSELSAIFPQNTNN 137
+P +E+V+ +T+QVTK IQEL +R++ K SFVP +E+I +AV+E++++FP+
Sbjct: 13 LPSTEDVILKTEQVTKNIQEL---LRAAQEFKHDSFVPCSEKIHLAVTEMASLFPKRPAL 69
Query: 138 DLIRHALRSLNTSTVRLQAEC-----------AQLEGSAERVRSCAYNMAKANKQLLT 184
+ +R +LR LN S RLQ+EC + ++V CAY++AKA KQL+T
Sbjct: 70 EPVRSSLRLLNASAYRLQSECRKTVPPEPGAPVDFQLLTQQVIQCAYDIAKAAKQLVT 127
>pdb|3JRO|A Chain A, Nup84-Nup145c-Sec13 Edge Element Of The Npc Lattice
Length = 753
Score = 28.5 bits (62), Expect = 2.2, Method: Composition-based stats.
Identities = 39/167 (23%), Positives = 71/167 (42%), Gaps = 10/167 (5%)
Query: 14 IAKLKTQVQQ------VIGENETLKAALNARNSATHHQPPETEPVSDSSWCSPQRPASMY 67
I +L T++Q+ V + E K + AR S + Q E+ + + ++ +S Y
Sbjct: 371 IKRLPTELQRKFLFDDVYLDKEIEKVTIEARKSNPYPQISESSLLFKDALDYXEKTSSDY 430
Query: 68 NVTVNAQSTTTRMPQSEEVVRRTDQVTKRIQELAAHMRSSDKCHSFV-PH-AERIRIAVS 125
N+ S+ P S DQV + + H R + S + P E+IR + +
Sbjct: 431 NLW--KLSSILFDPVSYPYKTDNDQVKXALLKKERHCRLTSWIVSQIGPEIEEKIRNSSN 488
Query: 126 ELSAIFPQNTNNDLIRHALRSLNTSTVRLQAECAQLEGSAERVRSCA 172
E+ IF ND++R + ++ + L + L + R+R A
Sbjct: 489 EIEQIFLYLLLNDVVRASKLAIESKNGHLSVLISYLGSNDPRIRDLA 535
>pdb|1PPL|E Chain E, Crystallographic Analysis Of Transition-State Mimics Bound
To Penicillopepsin: Phosphorus-Containing Peptide
Analogues
pdb|1PPM|E Chain E, Crystallographic Analysis Of Transition-state Mimics Bound
To Penicillopepsin: Phosphorus-containing Peptide
Analogues
pdb|1APT|E Chain E, Crystallographic Analysis Of A Pepstatin Analogue Binding
To The Aspartyl Proteinase Penicillopepsin At 1.8
Angstroms Resolution
pdb|1APU|E Chain E, Crystallographic Analysis Of A Pepstatin Analogue Binding
To The Aspartyl Proteinase Penicillopepsin At 1.8
Angstroms Resolution
pdb|1APV|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Difluorostatine-And
Difluorostatone-Containing Peptides
pdb|1APW|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Difluorostatine-And
Difluorostatone-Containing Peptides
pdb|1PPK|E Chain E, Crystallographic Analysis Of Transition State Mimics Bound
To Penicillopepsin: Phosphorous-Containing Peptide
Analogues
pdb|1BXO|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor: Methyl
Cyclo[(2s)-2-[[(1r)-1-(N-(L-N-(3-
Methylbutanoyl)valyl-L-Aspartyl)amino)-3-Methylbut Yl]
Hydroxyphosphinyloxy]-3-(3-Aminomethyl) Phenylpropanoate
pdb|1BXQ|A Chain A, Acid Proteinase (Penicillopepsin) Complex With Phosphonate
Inhibitor.
pdb|2WEA|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor:
Methyl[cyclo-7[(2r)-((N-Valyl)
Amino)-2-(Hydroxyl-(1s)-1-Methyoxycarbonyl-2-
Phenylethoxy)
Phosphinyloxy-Ethyl]-1-Naphthaleneacetamide], Sodium
Salt
pdb|2WEB|A Chain A, Acid Proteinase (penicillopepsin) (e.c.3.4.23.20) Complex
With Phosphonate Inhibitor:
Methyl(2s)-[1-(((n-formyl)-l-
Valyl)amino-2-(2-naphthyl)ethyl)hydroxyphosphinyloxy]-3-
Phenylpropanoate, Sodium Salt
pdb|2WEC|A Chain A, Acid Proteinase (Penicillopepsin) (E.C.3.4.23.20) Complex
With Phosphonate Inhibitor: Methyl(2s)-[1-(((N-(1-
Naphthaleneacetyl))-L-Valyl)aminomethyl)hydroxy
Phosphinyloxy]-3-Phenylpropanoate, Sodium Salt
pdb|2WED|A Chain A, Acid Proteinase (penicillopepsin) (e.c.3.4.23.20) Complex
With Phosphonate Macrocyclic
Inhibitor:methyl[cyclo-7[(2r)-
((n-valyl)amino)-2-(hydroxyl-(1s)-1-methyoxycarbonyl-2-
Phenylethoxy)phosphinyloxy-ethyl]-1-
naphthaleneacetamide], Sodium Salt
pdb|3APP|A Chain A, Structure And Refinement Of Penicillopepsin At 1.8
Angstroms Resolution
Length = 323
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 23/35 (65%), Gaps = 2/35 (5%)
Query: 116 HAERIRIAVSELSAIFPQNTNND-LIRHALRSLNT 149
H + ++ A ++SA F Q+TNND L+ A S+NT
Sbjct: 98 HGQAVQ-AAQQISAQFQQDTNNDGLLGLAFSSINT 131
>pdb|3BG0|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG0|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|B Chain B, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|C Chain C, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|F Chain F, Architecture Of A Coat For The Nuclear Pore Membrane
pdb|3BG1|G Chain G, Architecture Of A Coat For The Nuclear Pore Membrane
Length = 442
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 39/167 (23%), Positives = 71/167 (42%), Gaps = 10/167 (5%)
Query: 14 IAKLKTQVQQ------VIGENETLKAALNARNSATHHQPPETEPVSDSSWCSPQRPASMY 67
I +L T++Q+ V + E K + AR S + Q E+ + + ++ +S Y
Sbjct: 62 IKRLPTELQRKFLFDDVYLDKEIEKVTIEARKSNPYPQISESSLLFKDALDYMEKTSSDY 121
Query: 68 NVTVNAQSTTTRMPQSEEVVRRTDQVTKRIQELAAHMRSSDKCHSFV-PHAE-RIRIAVS 125
N+ S+ P S DQV + + H R + S + P E +IR + +
Sbjct: 122 NLW--KLSSILFDPVSYPYKTDNDQVKMALLKKERHCRLTSWIVSQIGPEIEEKIRNSSN 179
Query: 126 ELSAIFPQNTNNDLIRHALRSLNTSTVRLQAECAQLEGSAERVRSCA 172
E+ IF ND++R + ++ + L + L + R+R A
Sbjct: 180 EIEQIFLYLLLNDVVRASKLAIESKNGHLSVLISYLGSNDPRIRDLA 226
>pdb|3IKO|B Chain B, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|E Chain E, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
pdb|3IKO|H Chain H, Crystal Structure Of The Heterotrimeric
Sec13-Nup145c-Nup84 Nucleoporin Complex
Length = 442
Score = 27.3 bits (59), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 39/167 (23%), Positives = 71/167 (42%), Gaps = 10/167 (5%)
Query: 14 IAKLKTQVQQ------VIGENETLKAALNARNSATHHQPPETEPVSDSSWCSPQRPASMY 67
I +L T++Q+ V + E K + AR S + Q E+ + + ++ +S Y
Sbjct: 62 IKRLPTELQRKFLFDDVYLDKEIEKVTIEARKSNPYPQISESSLLFKDALDYMEKTSSDY 121
Query: 68 NVTVNAQSTTTRMPQSEEVVRRTDQVTKRIQELAAHMRSSDKCHSFV-PHAE-RIRIAVS 125
N+ S+ P S DQV + + H R + S + P E +IR + +
Sbjct: 122 NLW--KLSSILFDPVSYPYKTDNDQVKMALLKKERHCRLTSWIVSQIGPEIEEKIRNSSN 179
Query: 126 ELSAIFPQNTNNDLIRHALRSLNTSTVRLQAECAQLEGSAERVRSCA 172
E+ IF ND++R + ++ + L + L + R+R A
Sbjct: 180 EIEQIFLYLLLNDVVRASKLAIESKNGHLSVLISYLGSNDPRIRDLA 226
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
0.313 0.121 0.338
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,546,718
Number of Sequences: 62578
Number of extensions: 146461
Number of successful extensions: 490
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 486
Number of HSP's gapped (non-prelim): 7
length of query: 187
length of database: 14,973,337
effective HSP length: 93
effective length of query: 94
effective length of database: 9,153,583
effective search space: 860436802
effective search space used: 860436802
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 48 (23.1 bits)