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= 035907
(105 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 = 124 bits (310), Expect = 2e-29, Method: Compositional matrix adjust.
Identities = 67/127 (52%), Positives = 81/127 (63%), Gaps = 29/127 (22%)
Query: 1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVA---------------- 44
MV FLKP KAVILLQGR A RKAVI++ F++GTR+RP GHCLVA
Sbjct: 1 MVKFLKPGKAVILLQGRFAGRKAVIVRVFEEGTRDRPYGHCLVAGLAKYPKKVIRKDSAK 60
Query: 45 ------RIK------NYQHLMPTCYTLDVDLKEVVT-TNSLQSKDKKVTACEETKKHLEE 91
R+K N+ HLMPT YTLDVDLKEV ++L ++DKKV AC+ K LE+
Sbjct: 61 KTAKKSRVKCFLKLVNFTHLMPTRYTLDVDLKEVAAGPDALATRDKKVAACKSAKARLED 120
Query: 92 KFKTGKN 98
+FKTGKN
Sbjct: 121 RFKTGKN 127
>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 = 77.4 bits (189), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 44/127 (34%), Positives = 64/127 (50%), Gaps = 29/127 (22%)
Query: 1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
M FLK K ++++GR A +K VI+K D+G++ P GH LVA I+
Sbjct: 1 MAKFLKAGKVAVVVRGRYAGKKVVIVKPHDEGSKSHPFGHALVAGIERYPLKVTKKHGAK 60
Query: 48 ---------------NYQHLMPTCYTLDVD-LKEVVTTNSLQSKDKKVTACEETKKHLEE 91
NY HL+PT YTLDV+ K VV+T + + ++ A + KK EE
Sbjct: 61 KVAKRTKIKPFIKVVNYNHLLPTRYTLDVEAFKSVVSTETFEQPSQREEAKKVVKKAFEE 120
Query: 92 KFKTGKN 98
+ + GKN
Sbjct: 121 RHQAGKN 127
>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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 43/125 (34%), Positives = 63/125 (50%), Gaps = 31/125 (24%)
Query: 1 MVTFLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK------------- 47
M FLK + VILLQGR A +KAVI+KS +DGT++R GH LVA ++
Sbjct: 1 MAKFLKYGRVVILLQGRFAGKKAVIVKSSEDGTKDRKFGHVLVAGVERSPKKVTKRMGSK 60
Query: 48 ---------------NYQHLMPTCYTLD--VDLKEVVTTNSLQSKDKKVTACEETKKHLE 90
N H+MPT Y++ D KE+V + +++ + K + KK
Sbjct: 61 KIQKRTSVKPFIKYVNLNHIMPTRYSVKELCDFKELVKEDKIKN-NAKSEVRDTLKKVFV 119
Query: 91 EKFKT 95
EK++T
Sbjct: 120 EKYRT 124
>pdb|3ZF7|AA Chain a, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 133
Score = 59.3 bits (142), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 36/123 (29%), Positives = 58/123 (47%), Gaps = 29/123 (23%)
Query: 4 FLKPNKAVILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIK---------------- 47
FLKP K VI+ GR A +KAVI+++ D +ERP GH L+A IK
Sbjct: 3 FLKPGKVVIMTSGRYAGKKAVIVQNTDTRNKERPYGHSLLAGIKKYPRKVVRGMSKRSIT 62
Query: 48 ------------NYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFKT 95
N++H +PT Y +D+ +E+ ++ KK + + K+ + ++
Sbjct: 63 RRSQVGVFLRVVNHKHFLPTRYNMDLS-RELRGRINVSDASKKAKSKQLVKRLFQARYNA 121
Query: 96 GKN 98
G N
Sbjct: 122 GNN 124
>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 = 0.16, Method: Compositional matrix adjust.
Identities = 16/43 (37%), Positives = 25/43 (58%)
Query: 52 LMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEEKFK 94
++ T TL+V L+E++ + L+ K A E K +EEKFK
Sbjct: 130 MLATGGTLEVALREILKHSPLKVKSVHAIAAPEGLKRIEEKFK 172
>pdb|2OAU|A Chain A, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|B Chain B, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|C Chain C, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|D Chain D, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|E Chain E, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|F Chain F, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|2OAU|G Chain G, Mechanosensitive Channel Of Small Conductance (Mscs)
pdb|4HWA|A Chain A, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|B Chain B, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|C Chain C, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|D Chain D, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|E Chain E, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|F Chain F, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
pdb|4HWA|G Chain G, Crystal Structure Of Escherichia Coli Mscs Wildtype (open
State)
Length = 306
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 26 MKSFDDGTRERPNGHCLVARIKNY--------QHLMPTCYTLDVDLKEVVTTNSLQSKDK 77
M++ D PNG + I N+ + ++ Y D+D + + TN +QS+D+
Sbjct: 175 MRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDIDQVKQILTNIIQSEDR 234
Query: 78 KVTACEETKK 87
+ E T +
Sbjct: 235 ILKDREMTVR 244
>pdb|2VV5|A Chain A, The Open Structure Of Mscs
pdb|2VV5|B Chain B, The Open Structure Of Mscs
pdb|2VV5|C Chain C, The Open Structure Of Mscs
pdb|2VV5|D Chain D, The Open Structure Of Mscs
pdb|2VV5|E Chain E, The Open Structure Of Mscs
pdb|2VV5|F Chain F, The Open Structure Of Mscs
pdb|2VV5|G Chain G, The Open Structure Of Mscs
Length = 286
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 32/70 (45%), Gaps = 8/70 (11%)
Query: 26 MKSFDDGTRERPNGHCLVARIKNY--------QHLMPTCYTLDVDLKEVVTTNSLQSKDK 77
M++ D PNG + I N+ + ++ Y D+D + + TN +QS+D+
Sbjct: 155 MRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDIDQVKQILTNIIQSEDR 214
Query: 78 KVTACEETKK 87
+ E T +
Sbjct: 215 ILKDREMTVR 224
>pdb|4AGF|A Chain A, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|B Chain B, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|C Chain C, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|D Chain D, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|E Chain E, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|F Chain F, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
pdb|4AGF|G Chain G, Mtssl Spin Labeled L124c Mutant Of Mscs In The Open Form
Length = 286
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 8/60 (13%)
Query: 26 MKSFDDGTRERPNGHCLVARIKNY--------QHLMPTCYTLDVDLKEVVTTNSLQSKDK 77
M++ D PNG + I N+ + ++ Y D+D + + TN +QS+D+
Sbjct: 155 MRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDIDQVKQILTNIIQSEDR 214
>pdb|4AGE|A Chain A, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|B Chain B, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|C Chain C, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|D Chain D, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|E Chain E, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|F Chain F, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
pdb|4AGE|G Chain G, Mtssl Spin Labeled D67c Mutant Of Mscs In The Open Form
Length = 286
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%), Gaps = 8/60 (13%)
Query: 26 MKSFDDGTRERPNGHCLVARIKNY--------QHLMPTCYTLDVDLKEVVTTNSLQSKDK 77
M++ D PNG + I N+ + ++ Y D+D + + TN +QS+D+
Sbjct: 155 MRTADGKIIVIPNGKIIAGNIINFSREPVRRNEFIIGVAYDSDIDQVKQILTNIIQSEDR 214
>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 = 28.9 bits (63), Expect = 0.66, Method: Composition-based stats.
Identities = 13/28 (46%), Positives = 17/28 (60%)
Query: 4 FLKPNKAVILLQGRNASRKAVIMKSFDD 31
F KP+ A L+ GR ASR+ V FD+
Sbjct: 79 FAKPDWAAALVDGRGASRRNVHKSEFDE 106
>pdb|2JCM|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Ii In
Complex With Beryllium Trifluoride
pdb|2XJF|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic 5'-
Nucleotidase Ii With A Covalently Modified Asn52
Length = 555
Score = 28.9 bits (63), Expect = 0.78, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 23 AVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTL 59
A + K D + ERP+ + RIK H M CY +
Sbjct: 419 AELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGM 455
>pdb|2J2C|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Ii
(Nt5c2, Cn-Ii)
pdb|2JC9|A Chain A, Crystal Structure Of Human Cytosolic 5'-Nucleotidase Ii In
Complex With Adenosine
pdb|4H4B|A Chain A, Human Cytosolic 5'-nucleotidase Ii In Complex With
Anthraquinone-2,6- Disulfonic Acid
Length = 555
Score = 28.9 bits (63), Expect = 0.78, Method: Composition-based stats.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 23 AVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTL 59
A + K D + ERP+ + RIK H M CY +
Sbjct: 419 AELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGM 455
>pdb|2XCV|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic 5'-
Nucleotidase Ii In Complex With Inosine Monophosphate
And 2,3-Bisphosphoglycerate
pdb|2XCW|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic
5'-Nucleotidase Ii In Complex With Inosine Monophosphate
And Atp
pdb|2XCX|A Chain A, Crystal Structure Of The Apoform Of The D52n Variant Of
Cytosolic 5'- Nucleotidase Ii
pdb|2XJB|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic
5'-Nucleotidase Ii In Complex With Deoxyguanosine
Monophosphate And Deoxyadenosine Triphosphate
pdb|2XJC|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic
5'-Nucleotidase Ii In Complex With Guanosine
Monophosphate And Diadenosine Tetraphosphate
pdb|2XJD|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic 5'-
Nucleotidase Ii In Complex With Inorganic Phosphate And
Deoxyadenosine Triphosphate
Length = 554
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 23 AVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTL 59
A + K D + ERP+ + RIK H M CY +
Sbjct: 418 AELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGM 454
>pdb|2XJE|A Chain A, Crystal Structure Of The D52n Variant Of Cytosolic
5'-Nucleotidase Ii In Complex With Uridine
5'-Monophosphate And Adenosine Triphosphate
Length = 555
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 23 AVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTL 59
A + K D + ERP+ + RIK H M CY +
Sbjct: 419 AELYKHLDSSSNERPDISSIQRRIKKVTHDMDMCYGM 455
>pdb|3BGA|A Chain A, Crystal Structure Of Beta-Galactosidase From Bacteroides
Thetaiotaomicron Vpi-5482
pdb|3BGA|B Chain B, Crystal Structure Of Beta-Galactosidase From Bacteroides
Thetaiotaomicron Vpi-5482
Length = 1010
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 20/71 (28%), Positives = 34/71 (47%), Gaps = 10/71 (14%)
Query: 17 RNASRKAVIMKSFDDGTRERPNGHCL----VARIKNYQHLMPTCYTLDVDLKEVVTTNSL 72
++AS KAV+ + + +R N +A +K + P YTL ++LK+
Sbjct: 268 KDASGKAVLQDAINIKSRGLSNFIAFDEKKIAEVKAWNAEHPNLYTLVLELKDA------ 321
Query: 73 QSKDKKVTACE 83
Q K ++T CE
Sbjct: 322 QGKVTELTGCE 332
>pdb|1UF2|K Chain K, The Atomic Structure Of Rice Dwarf Virus (Rdv)
Length = 506
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 24/53 (45%)
Query: 37 PNGHCLVARIKNYQHLMPTCYTLDVDLKEVVTTNSLQSKDKKVTACEETKKHL 89
P+G + + Q + T DVDL +++ NS +K K+ + + L
Sbjct: 138 PSGFMDTPNVSSAQSSVHTVSNADVDLNDIIAINSTMAKSTKLVSASTLQAML 190
>pdb|3Q26|A Chain A, Cyrstal Structure Of Human Alpha-Synuclein (10-42) Fused
To Maltose Binding Protein (Mbp)
Length = 404
Score = 26.2 bits (56), Expect = 5.1, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 22/34 (64%)
Query: 58 TLDVDLKEVVTTNSLQSKDKKVTACEETKKHLEE 91
T+D LK+ T +S ++K+ V A E+TK+ + E
Sbjct: 357 TVDEALKDAQTNSSSKAKEGVVAAAEKTKQGVAE 390
>pdb|1ONK|B Chain B, Mistletoe Lectin I From Viscum Album
Length = 263
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 26/55 (47%)
Query: 11 VILLQGRNASRKAVIMKSFDDGTRERPNGHCLVARIKNYQHLMPTCYTLDVDLKE 65
V++ A R+A I + +D+GT P + ++A + T TLD L +
Sbjct: 76 VMIFDCNTAVREATIWQIWDNGTIINPRSNLVLAASSGIKGTTLTVQTLDYTLGQ 130
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
0.316 0.130 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,882,721
Number of Sequences: 62578
Number of extensions: 97151
Number of successful extensions: 261
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 243
Number of HSP's gapped (non-prelim): 20
length of query: 105
length of database: 14,973,337
effective HSP length: 70
effective length of query: 35
effective length of database: 10,592,877
effective search space: 370750695
effective search space used: 370750695
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)