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= psy3409
(139 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J3W|A Chain A, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex.
pdb|2J3W|C Chain C, The Crystal Structure Of The Bet3-Trs31-Sedlin Complex
Length = 142
Score = 154 bits (390), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 70/138 (50%), Positives = 106/138 (76%), Gaps = 2/138 (1%)
Query: 1 MANRYYFVMVGREDNPLYQRGF--SCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMY 58
M+ +YFV+VG DNP+++ F K + +++++ +FIAHA+LDL+DE +W +++MY
Sbjct: 3 MSGSFYFVIVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMY 62
Query: 59 LKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTP 118
LKT+DKFN+ VSAFVT ++F+M+HD + E+GIK FFT VY+L+IK+++NPFY+ N+P
Sbjct: 63 LKTVDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAMNPFYEPNSP 122
Query: 119 INSTYFDSKVNFLGRKFL 136
I S+ FD KV FLG+K L
Sbjct: 123 IRSSAFDRKVQFLGKKHL 140
>pdb|1H3Q|A Chain A, Crystal Sturcture Of Sedl At 2.4 Angstroms Resolution
Length = 140
Score = 154 bits (390), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 70/138 (50%), Positives = 106/138 (76%), Gaps = 2/138 (1%)
Query: 1 MANRYYFVMVGREDNPLYQRGF--SCKEANDNENKYYYEFIAHASLDLLDEQVWQTDHMY 58
M+ +YFV+VG DNP+++ F K + +++++ +FIAHA+LDL+DE +W +++MY
Sbjct: 1 MSGSFYFVIVGHHDNPVFEMEFLPPGKAESKDDHRHLNQFIAHAALDLVDENMWLSNNMY 60
Query: 59 LKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTP 118
LKT+DKFN+ VSAFVT ++F+M+HD + E+GIK FFT VY+L+IK+++NPFY+ N+P
Sbjct: 61 LKTVDKFNEWFVSAFVTAGHMRFIMLHDVRQEDGIKNFFTDVYDLYIKFAMNPFYEPNSP 120
Query: 119 INSTYFDSKVNFLGRKFL 136
I S+ FD KV FLG+K L
Sbjct: 121 IRSSAFDRKVQFLGKKHL 138
>pdb|2J3T|D Chain D, The Crystal Structure Of The Bet3-Trs33-Bet5-Trs23 Complex
Length = 219
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 72 AFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSL-NPFYKINTPINSTYFDSKVNF 130
+ T TG+KF+++ D + + GI +YE++ ++L NPFY + PI FD +
Sbjct: 146 CYQTLTGIKFVVLADPR-QAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKL 204
>pdb|2ZMV|A Chain A, Crystal Structure Of Synbindin
pdb|2ZMV|B Chain B, Crystal Structure Of Synbindin
Length = 227
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 33/60 (55%), Gaps = 2/60 (3%)
Query: 72 AFVTPTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSL-NPFYKINTPINSTYFDSKVNF 130
+ T TG+KF+++ D + + GI +YE++ ++L NPFY + PI FD +
Sbjct: 146 CYQTLTGIKFVVLADPR-QAGIDSLLRKIYEIYSDFALKNPFYSLEMPIRCELFDQNLKL 204
>pdb|2DH4|A Chain A, Geranylgeranyl Pyrophosphate Synthase
pdb|2DH4|B Chain B, Geranylgeranyl Pyrophosphate Synthase
pdb|2E8T|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Fspp And Ipp
pdb|2E8T|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Fspp And Ipp
pdb|2E8U|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ipp (P21)
pdb|2E8U|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ipp (P21)
pdb|2E8V|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Product Ggpp (P21)
pdb|2E8V|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Product Ggpp (P21)
pdb|2E8W|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ipp
pdb|2E8W|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ipp
pdb|2E8X|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|2E8X|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Gpp
pdb|2E90|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Pyrophosphate And Fpp
pdb|2E90|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Pyrophosphate And Fpp
pdb|2E91|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-91
pdb|2E91|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-91
pdb|2E92|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-261
pdb|2E92|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-261
pdb|2E93|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-629
pdb|2E93|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-629
pdb|2E94|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-364
pdb|2E94|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-364
pdb|2E95|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-675
pdb|2E95|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-675
pdb|2Z7H|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Inhibitor Bph-210
pdb|2Z7H|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Inhibitor Bph-210
pdb|2Z4V|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ggpp (Inhibitory Site)
pdb|2Z4V|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Ggpp (Inhibitory Site)
pdb|2Z4W|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-749
pdb|2Z4W|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-749
pdb|2Z4X|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-252 (P21)
pdb|2Z4X|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-252 (P21)
pdb|2Z4Y|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-252
pdb|2Z4Y|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-252
pdb|2Z4Z|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-Sc01
pdb|2Z4Z|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-Sc01
pdb|2Z50|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-28
pdb|2Z50|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-28
pdb|2Z52|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-23
pdb|2Z52|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium And Bph-23
pdb|2Z78|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-806
pdb|2Z78|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-806
pdb|2Z7I|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Inhibitor Bph-742
pdb|2Z7I|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Inhibitor Bph-742
pdb|2ZEU|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-715
pdb|2ZEU|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Bph-715
pdb|2ZEV|A Chain A, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp And Bph-715
pdb|2ZEV|B Chain B, S. Cerevisiae Geranylgeranyl Pyrophosphate Synthase In
Complex With Magnesium, Ipp And Bph-715
Length = 340
Score = 27.3 bits (59), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 21/32 (65%), Gaps = 2/32 (6%)
Query: 28 NDNENKYYYEFIAHA--SLDLLDEQVWQTDHM 57
NDNENKY + +H+ + +L DE ++ DH+
Sbjct: 306 NDNENKYLPDLASHSDTATNLHDELLYIIDHL 337
>pdb|2NPP|B Chain B, Structure Of The Protein Phosphatase 2a Holoenzyme
pdb|2NPP|E Chain E, Structure Of The Protein Phosphatase 2a Holoenzyme
Length = 449
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 44/92 (47%), Gaps = 8/92 (8%)
Query: 37 EFIAHASLDLLDEQVW-QTDHMYLKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKK 95
E+I H + +++ E ++ + HM+ ++ F + S+ PTG +F D E
Sbjct: 78 EYITH-NRNVITEPIYPEVVHMF--AVNMFRTLPPSS--NPTGAEFDPEEDEPTLEAAWP 132
Query: 96 FFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
VYE F+++ +P ++ N I Y D K
Sbjct: 133 HLQLVYEFFLRFLESPDFQPN--IAKKYIDQK 162
>pdb|2JAK|A Chain A, Human Pp2a Regulatory Subunit B56g
Length = 392
Score = 27.3 bits (59), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 44/92 (47%), Gaps = 8/92 (8%)
Query: 37 EFIAHASLDLLDEQVW-QTDHMYLKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKK 95
E+I H + +++ E ++ + HM+ ++ F + S+ PTG +F D E
Sbjct: 90 EYITH-NRNVITEPIYPEVVHMF--AVNMFRTLPPSS--NPTGAEFDPEEDEPTLEAAWP 144
Query: 96 FFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
VYE F+++ +P ++ N I Y D K
Sbjct: 145 HLQLVYEFFLRFLESPDFQPN--IAKKYIDQK 174
>pdb|3FGA|B Chain B, Structural Basis Of Pp2a And Sgo Interaction
Length = 403
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 44/92 (47%), Gaps = 8/92 (8%)
Query: 37 EFIAHASLDLLDEQVW-QTDHMYLKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKK 95
E+I H + +++ E ++ + HM+ ++ F + S+ PTG +F D E
Sbjct: 45 EYITH-NRNVITEPIYPEVVHMF--AVNMFRTLPPSS--NPTGAEFDPEEDEPTLEAAWP 99
Query: 96 FFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
VYE F+++ +P ++ N I Y D K
Sbjct: 100 HLQLVYEFFLRFLESPDFQPN--IAKKYIDQK 129
>pdb|2IAE|B Chain B, Crystal Structure Of A Protein Phosphatase 2a (Pp2a)
Holoenzyme.
pdb|2IAE|E Chain E, Crystal Structure Of A Protein Phosphatase 2a (Pp2a)
Holoenzyme
Length = 407
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 44/92 (47%), Gaps = 8/92 (8%)
Query: 37 EFIAHASLDLLDEQVW-QTDHMYLKTIDKFNDMMVSAFVTPTGVKFLMVHDSKNEEGIKK 95
E+I H + +++ E ++ + HM+ ++ F + S+ PTG +F D E
Sbjct: 49 EYITH-NRNVITEPIYPEVVHMF--AVNMFRTLPPSS--NPTGAEFDPEEDEPTLEAAWP 103
Query: 96 FFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
VYE F+++ +P ++ N I Y D K
Sbjct: 104 HLQLVYEFFLRFLESPDFQPN--IAKKYIDQK 133
>pdb|2RO0|A Chain A, Solution Structure Of The Knotted Tudor Domain Of The
Yeast Histone Acetyltransferase, Esa1
Length = 92
Score = 26.6 bits (57), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 83 MVHDSKNEEGIKKFFTSVYELFIK 106
M HD K E GI K SV ++ IK
Sbjct: 4 MSHDGKEEPGIAKKINSVDDIIIK 27
>pdb|3CUE|A Chain A, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|G Chain G, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|M Chain M, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
pdb|3CUE|S Chain S, Crystal Structure Of A Trapp Subassembly Activating The
Rab Ypt1p
Length = 219
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 1/34 (2%)
Query: 96 FFTSVYELFIKYSL-NPFYKINTPINSTYFDSKV 128
F VY L+ Y + +P Y + PI S FD KV
Sbjct: 178 FLRKVYCLYSDYVMKDPSYSMEMPIRSNLFDEKV 211
>pdb|2NYL|B Chain B, Crystal Structure Of Protein Phosphatase 2a (Pp2a)
Holoenzyme With The Catalytic Subunit Carboxyl Terminus
Truncated
pdb|2NYL|E Chain E, Crystal Structure Of Protein Phosphatase 2a (Pp2a)
Holoenzyme With The Catalytic Subunit Carboxyl Terminus
Truncated
pdb|2NYM|B Chain B, Crystal Structure Of Protein Phosphatase 2a (Pp2a) With
C-Terminus Truncated Catalytic Subunit
pdb|2NYM|E Chain E, Crystal Structure Of Protein Phosphatase 2a (Pp2a) With
C-Terminus Truncated Catalytic Subunit
Length = 388
Score = 26.2 bits (56), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 23/52 (44%), Gaps = 2/52 (3%)
Query: 76 PTGVKFLMVHDSKNEEGIKKFFTSVYELFIKYSLNPFYKINTPINSTYFDSK 127
PTG +F D E VYE F+++ +P ++ N I Y D K
Sbjct: 76 PTGAEFDPEEDEPTLEAAWPHLQLVYEFFLRFLESPDFQPN--IAKKYIDQK 125
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 0.138 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,434,255
Number of Sequences: 62578
Number of extensions: 176683
Number of successful extensions: 401
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 392
Number of HSP's gapped (non-prelim): 19
length of query: 139
length of database: 14,973,337
effective HSP length: 89
effective length of query: 50
effective length of database: 9,403,895
effective search space: 470194750
effective search space used: 470194750
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: 46 (22.3 bits)