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= psy2895
(293 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3T7V|A Chain A, Crystal Structure Of Methylornithine Synthase (Pylb)
Length = 350
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 83/188 (44%), Gaps = 19/188 (10%)
Query: 64 FMIMGSICTRRCKFC------NISHGRPDPLDIEEPKKIAYTINKLKLNYVVITSVNRDD 117
F+ + C +C FC I+ R L +EE K+ T+ + V +T + D
Sbjct: 64 FIYFSTYCKNQCSFCYYNCRNEINRYR---LTMEEIKETCKTLKGAGFHMVDLT-MGEDP 119
Query: 118 LHDGGSSHFVSCIKHIRKLSTKIKIEILI-PDFRNQINHVLKIFKQALPDVLNHNIETV- 175
+ + FV ++ +++ ++ + I+I P + N L ++ + L ET
Sbjct: 120 YYYEDPNRFVELVQIVKE---ELGLPIMISPGLMD--NATLLKAREKGANFLALYQETYD 174
Query: 176 PRLYKKVRPGSDYKHSLNLLKNFKKLYPNILTKSGIMVGLGENDEEILTVIHDMRNHNID 235
LY+K+R G + +N + K+ + GI+ G+G + E + + M ++ D
Sbjct: 175 TELYRKLRVGQSFDGRVNARRFAKQ--QGYCVEDGILTGVGNDIESTILSLRGMSTNDPD 232
Query: 236 ILTIGQYL 243
++ + +L
Sbjct: 233 MVRVMTFL 240
>pdb|1C02|A Chain A, Crystal Structure Of Yeast Ypd1p
pdb|1C02|B Chain B, Crystal Structure Of Yeast Ypd1p
Length = 166
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 193 NLLKNFKKLYPN------ILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTIGQYLM 244
NL + + +PN L+ I+ G+ E+DEEI + D ++I ++ I + L
Sbjct: 86 NLGRKMQHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALN 145
Query: 245 PSRLHLPVHRYLHPKFF 261
SRL + R K++
Sbjct: 146 QSRLEFKLARIELSKYY 162
>pdb|1OXB|A Chain A, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P2(1)2(1)2(1)
pdb|1OXK|A Chain A, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|C Chain C, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|E Chain E, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|G Chain G, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|I Chain I, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
pdb|1OXK|K Chain K, Complex Between Ypd1 And Sln1 Response Regulator Domain In
Space Group P3(2)
Length = 166
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 193 NLLKNFKKLYPN------ILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTIGQYLM 244
NL + + +PN L+ I+ G+ E+DEEI + D ++I ++ I + L
Sbjct: 86 NLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALN 145
Query: 245 PSRLHLPVHRYLHPKFF 261
SRL + R K++
Sbjct: 146 QSRLEFKLARIELSKYY 162
>pdb|2R25|A Chain A, Complex Of Ypd1 And Sln1-R1 With Bound Mg2+ And Bef3-
Length = 167
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 193 NLLKNFKKLYPN------ILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTIGQYLM 244
NL + + +PN L+ I+ G+ E+DEEI + D ++I ++ I + L
Sbjct: 87 NLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALN 146
Query: 245 PSRLHLPVHRYLHPKFF 261
SRL + R K++
Sbjct: 147 QSRLEFKLARIELSKYY 163
>pdb|1QSP|A Chain A, Crystal Structure Of The Yeast Phosphorelay Protein Ypd1
pdb|1QSP|B Chain B, Crystal Structure Of The Yeast Phosphorelay Protein Ypd1
Length = 165
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 193 NLLKNFKKLYPN------ILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTIGQYLM 244
NL + + +PN L+ I+ G+ E+DEEI + D ++I ++ I + L
Sbjct: 85 NLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALN 144
Query: 245 PSRLHLPVHRYLHPKFF 261
SRL + R K++
Sbjct: 145 QSRLEFKLARIELSKYY 161
>pdb|1C03|A Chain A, Crystal Structure Of Ypd1p (Triclinic Form)
pdb|1C03|B Chain B, Crystal Structure Of Ypd1p (Triclinic Form)
pdb|1C03|C Chain C, Crystal Structure Of Ypd1p (Triclinic Form)
pdb|1C03|D Chain D, Crystal Structure Of Ypd1p (Triclinic Form)
Length = 168
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 37/77 (48%), Gaps = 8/77 (10%)
Query: 193 NLLKNFKKLYPN------ILTKSGIMVGLG--ENDEEILTVIHDMRNHNIDILTIGQYLM 244
NL + + +PN L+ I+ G+ E+DEEI + D ++I ++ I + L
Sbjct: 87 NLGRKMEHFFPNKTELVNTLSDKSIINGINIDEDDEEIKIQVDDKDENSIYLILIAKALN 146
Query: 245 PSRLHLPVHRYLHPKFF 261
SRL + R K++
Sbjct: 147 QSRLEFKLARIELSKYY 163
>pdb|1GQZ|A Chain A, Refinement Of Haemophilus Influenzae Diaminopimelate
Epimerase At 1.7a
pdb|2GKE|A Chain A, Crystal Structure Of Diaminopimelate Epimerase In Complex
With An Irreversible Inhibitor Ll-Azidap
pdb|2GKJ|A Chain A, Crystal Structure Of Diaminopimelate Epimerase In Complex
With An Irreversible Inhibitor Dl-Azidap
Length = 274
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 17/81 (20%)
Query: 46 EEASCPNIGECFGRGVATFMIMG----SICTRRCKFC---------NISHGRPDPLDIEE 92
E + C N CF R V + S+ T++ ++ G P I E
Sbjct: 69 EVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDDNQIRVNMGEP----IWE 124
Query: 93 PKKIAYTINKLKLNYVVITSV 113
P KI +T NK + NY++ T +
Sbjct: 125 PAKIPFTANKFEKNYILRTDI 145
>pdb|1BWZ|A Chain A, Diaminopimelate Epimerase From Hemophilus Influenzae
Length = 274
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 34/81 (41%), Gaps = 17/81 (20%)
Query: 46 EEASCPNIGECFGRGVATFMIMG----SICTRRCKFC---------NISHGRPDPLDIEE 92
E + C N CF R V + S+ T++ ++ G P I E
Sbjct: 69 EVSQCGNGARCFARFVTLKGLTNKKDISVSTQKGNMVLTVKDMNQIRVNMGEP----IWE 124
Query: 93 PKKIAYTINKLKLNYVVITSV 113
P KI +T NK + NY++ T +
Sbjct: 125 PAKIPFTANKFEKNYILRTDI 145
>pdb|3P3K|A Chain A, The Crystal Structure Of Translationally Controlled Tumor
Protein (Tctp) Of Plasmodium Falciparum
Length = 183
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/95 (21%), Positives = 43/95 (45%), Gaps = 6/95 (6%)
Query: 78 CNISHGRPDPLDIEEPKKIAYTI---NKLKLNYVVITSVNRDDLHDGGSS---HFVSCIK 131
C+ S+ + DP ++ E ++IA+ + ++K N + N +D +G + H + +
Sbjct: 18 CSDSYVQQDPFEVPEFREIAFEVKSNKRIKGNEDYGIADNSEDAVEGMGADVEHVIDIVD 77
Query: 132 HIRKLSTKIKIEILIPDFRNQINHVLKIFKQALPD 166
+ ST + +N + V K ++ PD
Sbjct: 78 SFQLTSTAFSKKEYSAYIKNYMQKVAKYLEEKKPD 112
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
0.324 0.141 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,868,366
Number of Sequences: 62578
Number of extensions: 371827
Number of successful extensions: 946
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 944
Number of HSP's gapped (non-prelim): 16
length of query: 293
length of database: 14,973,337
effective HSP length: 98
effective length of query: 195
effective length of database: 8,840,693
effective search space: 1723935135
effective search space used: 1723935135
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)