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= 032739
(135 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|AA Chain a, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 136
Score = 222 bits (566), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 108/136 (79%), Positives = 121/136 (88%), Gaps = 1/136 (0%)
Query: 1 MVKFLKPNKAVVLLQGRYAGRKAVIIRSFDDGTRDRPYGHCLVAGVAKYPVKVVRKDSAK 60
MVKFLKP KAV+LLQGR+AGRKAVI+R F++GTRDRPYGHCLVAG+AKYP KV+RKDSAK
Sbjct: 1 MVKFLKPGKAVILLQGRFAGRKAVIVRVFEEGTRDRPYGHCLVAGLAKYPKKVIRKDSAK 60
Query: 61 KTAKKSRVKAFIKLVNQSHLMPTRYTLDVDLKDV-INPDVLQTKDKKVTAAKETKRRLEE 119
KTAKKSRVK F+KLVN +HLMPTRYTLDVDLK+V PD L T+DKKV A K K RLE+
Sbjct: 61 KTAKKSRVKCFLKLVNFTHLMPTRYTLDVDLKEVAAGPDALATRDKKVAACKSAKARLED 120
Query: 120 RFKTGKNRWFFSKLRF 135
RFKTGKNRWFF+KLRF
Sbjct: 121 RFKTGKNRWFFTKLRF 136
>pdb|3IZS|AA Chain a, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3U5E|Z Chain Z, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|Z Chain Z, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|Z Chain Z, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 136
Score = 154 bits (388), Expect = 2e-38, Method: Compositional matrix adjust.
Identities = 69/136 (50%), Positives = 100/136 (73%), Gaps = 1/136 (0%)
Query: 1 MVKFLKPNKAVVLLQGRYAGRKAVIIRSFDDGTRDRPYGHCLVAGVAKYPVKVVRKDSAK 60
M KFLK K V+++GRYAG+K VI++ D+G++ P+GH LVAG+ +YP+KV +K AK
Sbjct: 1 MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERYPLKVTKKHGAK 60
Query: 61 KTAKKSRVKAFIKLVNQSHLMPTRYTLDVD-LKDVINPDVLQTKDKKVTAAKETKRRLEE 119
K AK++++K FIK+VN +HL+PTRYTLDV+ K V++ + + ++ A K K+ EE
Sbjct: 61 KVAKRTKIKPFIKVVNYNHLLPTRYTLDVEAFKSVVSTETFEQPSQREEAKKVVKKAFEE 120
Query: 120 RFKTGKNRWFFSKLRF 135
R + GKN+WFFSKLRF
Sbjct: 121 RHQAGKNQWFFSKLRF 136
>pdb|3ZF7|AA Chain a, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 133
Score = 129 bits (324), Expect = 5e-31, Method: Compositional matrix adjust.
Identities = 61/136 (44%), Positives = 90/136 (66%), Gaps = 5/136 (3%)
Query: 2 VKFLKPNKAVVLLQGRYAGRKAVIIRSFDDGTRDRPYGHCLVAGVAKYPVKVVRKDSAKK 61
+KFLKP K V++ GRYAG+KAVI+++ D ++RPYGH L+AG+ KYP KVVR S +
Sbjct: 1 MKFLKPGKVVIMTSGRYAGKKAVIVQNTDTRNKERPYGHSLLAGIKKYPRKVVRGMSKRS 60
Query: 62 TAKKSRVKAFIKLVNQSHLMPTRYTLDV--DLKDVINPDVLQTKDKKVTAAKETKRRLEE 119
++S+V F+++VN H +PTRY +D+ +L+ IN + KK + + KR +
Sbjct: 61 ITRRSQVGVFLRVVNHKHFLPTRYNMDLSRELRGRIN---VSDASKKAKSKQLVKRLFQA 117
Query: 120 RFKTGKNRWFFSKLRF 135
R+ G NRWFF +LRF
Sbjct: 118 RYNAGNNRWFFQRLRF 133
>pdb|4A18|N Chain N, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|N Chain N, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|N Chain N, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|N Chain N, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 144
Score = 117 bits (294), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 64/146 (43%), Positives = 97/146 (66%), Gaps = 13/146 (8%)
Query: 1 MVKFLKPNKAVVLLQGRYAGRKAVIIRSFDDGTRDRPYGHCLVAGVAKYPVKVVRKDSAK 60
M KFLK + V+LLQGR+AG+KAVI++S +DGT+DR +GH LVAGV + P KV ++ +K
Sbjct: 1 MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSK 60
Query: 61 KTAKKSRVKAFIKLVNQSHLMPTRYTLD--VDLKDVINPDVLQTKDKKVTAAKET-KRRL 117
K K++ VK FIK VN +H+MPTRY++ D K+++ D ++ K + ++T K+
Sbjct: 61 KIQKRTSVKPFIKYVNLNHIMPTRYSVKELCDFKELVKEDKIKNNAK--SEVRDTLKKVF 118
Query: 118 EERFKT--------GKNRWFFSKLRF 135
E+++T ++FFSKLRF
Sbjct: 119 VEKYRTINPEEKSASHTKFFFSKLRF 144
>pdb|3ZF7|VV Chain v, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 192
Score = 32.3 bits (72), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 3 KFLKPNKAVVLLQGRYAGRKAVIIRSFDDGTRDRPYGHCLVAGVAKYP-VKVVRKDSAKK 61
K KP ++L GR+ GR+AVI++ G +++G KY V + R DS
Sbjct: 28 KSCKPGTIAIILAGRFRGRRAVILKQLPKN------GPLVISGPMKYSGVPIRRIDSRYI 81
Query: 62 TAKKSRVKAFIKLVNQSHLMP 82
A +RV + V+ S + P
Sbjct: 82 IATSTRVD--LTGVDTSAITP 100
>pdb|2E55|A Chain A, Structure Of Aq2163 Protein From Aquifex Aeolicus
pdb|2E55|B Chain B, Structure Of Aq2163 Protein From Aquifex Aeolicus
pdb|2E55|C Chain C, Structure Of Aq2163 Protein From Aquifex Aeolicus
pdb|2E55|D Chain D, Structure Of Aq2163 Protein From Aquifex Aeolicus
Length = 208
Score = 31.2 bits (69), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 26/43 (60%)
Query: 80 LMPTRYTLDVDLKDVINPDVLQTKDKKVTAAKETKRRLEERFK 122
++ T TL+V L++++ L+ K AA E +R+EE+FK
Sbjct: 130 MLATGGTLEVALREILKHSPLKVKSVHAIAAPEGLKRIEEKFK 172
>pdb|3IZS|G Chain G, Localization Of The Large Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|F Chain F, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The First 80s In The Asymmetric Unit.
pdb|3O5H|F Chain F, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|E Chain E, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|E Chain E, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|E Chain E, Cryo-Em Structure Of The 60s Ribosomal Subunit In
Complex With Arx1 And Rei1
Length = 176
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 18/29 (62%)
Query: 5 LKPNKAVVLLQGRYAGRKAVIIRSFDDGT 33
L P ++LL GR+ G++ V ++ +D T
Sbjct: 34 LVPGTVLILLAGRFRGKRVVYLKHLEDNT 62
>pdb|3IZR|G Chain G, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 219
Score = 27.7 bits (60), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 9/28 (32%), Positives = 16/28 (57%)
Query: 5 LKPNKAVVLLQGRYAGRKAVIIRSFDDG 32
+ P ++LL GRY G++ V ++ G
Sbjct: 75 ITPGTVLILLAGRYMGKRVVFLKQLQSG 102
>pdb|2BEI|A Chain A, X-Ray Structure Of Thialysine N-Acetyltransferase
(Ssat2) From Homo Sapiens
pdb|2BEI|B Chain B, X-Ray Structure Of Thialysine N-Acetyltransferase
(Ssat2) From Homo Sapiens
pdb|2Q4V|A Chain A, Ensemble Refinement Of The Protein Crystal Structure Of
Thialysine N- Acetyltransferase (Ssat2) From Homo
Sapiens
pdb|2Q4V|B Chain B, Ensemble Refinement Of The Protein Crystal Structure Of
Thialysine N- Acetyltransferase (Ssat2) From Homo
Sapiens
Length = 170
Score = 27.7 bits (60), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 31 DGTRDRPYGHCLVAGVAKYPVKVV 54
DG D P+ HCLVA + P K++
Sbjct: 44 DGFGDNPFYHCLVAEILPAPGKLL 67
>pdb|4FCY|A Chain A, Crystal Structure Of The Bacteriophage Mu Transpososome
pdb|4FCY|B Chain B, Crystal Structure Of The Bacteriophage Mu Transpososome
Length = 529
Score = 27.3 bits (59), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 3 KFLKPNKAVVLLQGRYAGRKAVIIRSFDD 31
KF KP+ A L+ GR A R+ V FD+
Sbjct: 78 KFAKPDWAAALVDGRGASRRNVHKSEFDE 106
>pdb|2F5I|A Chain A, X-Ray Structure Of SpermidineSPERMINE
N1-Acetyltransferase (Sat) From Homo Sapiens
pdb|2F5I|B Chain B, X-Ray Structure Of SpermidineSPERMINE
N1-Acetyltransferase (Sat) From Homo Sapiens
pdb|2G3T|A Chain A, Crsytal Structure Of Human SpermidineSPERMINE N1-
Acetyltransferase (Hssat)
pdb|2G3T|B Chain B, Crsytal Structure Of Human SpermidineSPERMINE N1-
Acetyltransferase (Hssat)
Length = 179
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 43 EDGFGEHPFYHCLVAEVPK 61
>pdb|3BJ7|A Chain A, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ7|B Chain B, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ7|C Chain C, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ7|D Chain D, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ8|A Chain A, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ8|B Chain B, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ8|C Chain C, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
pdb|3BJ8|D Chain D, SpermineSPERMIDINE N1-Acetyltransferase From Mouse:
Crystal Structure Of A Ternary Complex Reveals
Solvent-Mediated Spermine Binding
Length = 171
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 43 EDGFGEHPFYHCLVAEVPK 61
>pdb|2FXF|A Chain A, Human SpermidineSPERMINE N1-Acetyltransferase
pdb|2FXF|B Chain B, Human SpermidineSPERMINE N1-Acetyltransferase
Length = 170
Score = 26.9 bits (58), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 42 EDGFGEHPFYHCLVAEVPK 60
>pdb|2JEV|A Chain A, Crystal Structure Of Human Spermine,Spermidine
Acetyltransferase In Complex With A Bisubstrate Analog
(N1- Acetylspermine-S-Coa).
pdb|2JEV|B Chain B, Crystal Structure Of Human Spermine,Spermidine
Acetyltransferase In Complex With A Bisubstrate Analog
(N1- Acetylspermine-S-Coa)
Length = 174
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 46 EDGFGEHPFYHCLVAEVPK 64
>pdb|2B4D|A Chain A, Ssat+coa+sp- Sp Disordered
pdb|2B5G|A Chain A, Wild Type Ssat- 1.7a Structure
Length = 171
Score = 26.9 bits (58), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 43 EDGFGEHPFYHCLVAEVPK 61
>pdb|2B3U|A Chain A, Human Spermine Spermidine Acetyltransferase K26r Mutant
pdb|2B3U|B Chain B, Human Spermine Spermidine Acetyltransferase K26r Mutant
pdb|2B3V|A Chain A, Spermine Spermidine Acetyltransferase In Complex With
Acetylcoa, K26r Mutant
pdb|2B4B|A Chain A, Ssat+coa+be-3-3-3, K6r Mutant
pdb|2B4B|B Chain B, Ssat+coa+be-3-3-3, K6r Mutant
pdb|2B58|A Chain A, Ssat With Coa_sp, Spermine Disordered, K26r Mutant
Length = 171
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 43 EDGFGEHPFYHCLVAEVPK 61
>pdb|2B4D|B Chain B, Ssat+coa+sp- Sp Disordered
pdb|2B5G|B Chain B, Wild Type Ssat- 1.7a Structure
Length = 171
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/19 (52%), Positives = 13/19 (68%)
Query: 30 DDGTRDRPYGHCLVAGVAK 48
+DG + P+ HCLVA V K
Sbjct: 43 EDGFGEHPFYHCLVAEVPK 61
>pdb|3RQT|A Chain A, 1.5 Angstrom Crystal Structure Of The Complex Of Ligand
Binding Component Of Abc-Type Import System From
Staphylococcus Aureus With Nickel And Two Histidines
Length = 486
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 8/73 (10%)
Query: 50 PVKVVRKDSAKKTAKKSRVKAFIKLVNQSHLMPTRYTLDVDLKDVINPDVLQTKDKKVTA 109
PVK+ +S KT + +++ K + +S+ P TLD++LKD I + ++ +
Sbjct: 43 PVKIGAAESLFKTNDQGKIE---KALVKSYHQPNDTTLDIELKDNI-----KFQNGQKLT 94
Query: 110 AKETKRRLEERFK 122
A++ K LE K
Sbjct: 95 AEKVKSSLENSXK 107
>pdb|1TAZ|A Chain A, Catalytic Domain Of Human Phosphodiesterase 1b
Length = 365
Score = 26.2 bits (56), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 76 NQSHLMPTRYTLDVDLKDVINPDVLQTKDKKVTAAKETKRRLEERFKTG 124
NQ + +LDV++ D NPDV+ + V +E K++ +ER +G
Sbjct: 315 NQPSFQWRQPSLDVEVGDP-NPDVVSFRSTWVKRIQENKQKWKERAASG 362
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 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,697,382
Number of Sequences: 62578
Number of extensions: 132149
Number of successful extensions: 607
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 18
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 585
Number of HSP's gapped (non-prelim): 25
length of query: 135
length of database: 14,973,337
effective HSP length: 88
effective length of query: 47
effective length of database: 9,466,473
effective search space: 444924231
effective search space used: 444924231
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)