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= psy198
(245 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From
Methanobacterium Thermoautotrophicum
Length = 208
Score = 101 bits (252), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 56/173 (32%), Positives = 100/173 (57%), Gaps = 5/173 (2%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G +V PTDT+YGL +A + A+ L+ +K R +KP++ICVS + +IP+++ +
Sbjct: 26 GGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSPHKPVSICVSCVDEIPRFSRPSGDAM 85
Query: 107 ELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANE 166
EL+ +LPGP T+V R+E + + ++V +R+PD + R++ P+ TSAN
Sbjct: 86 ELMERILPGPYTVVLERNELIPDVITGGSSRVGIRVPDDEICRRIAARF--PVTATSANI 143
Query: 167 SNEPSTLCINEFQKLWSQLSVVIDGGIISNPERFGSTIVDLSEENVYSIVRKG 219
S +P + + E + + +V+D G + E ST++DL+ N ++R+G
Sbjct: 144 SGKPPSPRLEEIVRDLDAVDLVLDAGDCLDME--PSTVIDLT-VNPPRVLRRG 193
>pdb|3AJE|A Chain A, Crystal Structure Of S. Tokodaii Sua5 Complexed With
L-Threonine And Amppnp
Length = 352
Score = 80.1 bits (196), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 48/148 (32%), Positives = 79/148 (53%), Gaps = 2/148 (1%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWA-DTHTVS 105
G VA PT+T+YGL +A + A +++ K R V+ PL + +++ + + A D
Sbjct: 27 GGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQLFEVAKDIPDKV 86
Query: 106 FELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSAN 165
E+ + PGP+T V ++E + E+ + VAVR+P H QL++ P+A SAN
Sbjct: 87 LEIAQIVWPGPLTFVLKKTERVPKEVTAGLDTVAVRMPAHPIALQLIRESGVPIAAPSAN 146
Query: 166 ESNEPS-TLCINEFQKLWSQLSVVIDGG 192
+ PS T + L ++ V+IDGG
Sbjct: 147 LATRPSPTKAEDVIVDLNGRVDVIIDGG 174
>pdb|2EQA|A Chain A, Crystal Structure Of The Hypothetical Sua5 Protein From
Sulfolobus Tokodaii
pdb|4E1B|A Chain A, Re-Refinement Of Pdb Entry 2eqa - Sua5 Protein From
Sulfolobus Tokodaii With Bound
Threonylcarbamoyladenylate
Length = 352
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 48/148 (32%), Positives = 78/148 (52%), Gaps = 2/148 (1%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWA-DTHTVS 105
G VA PT+T+YGL +A + A +++ K R V+ PL + +++ + + A D
Sbjct: 27 GGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADFNQLFEVAKDIPDKV 86
Query: 106 FELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSAN 165
E+ + PGP+T V ++E + E+ + VAVR P H QL++ P+A SAN
Sbjct: 87 LEIAQIVWPGPLTFVLKKTERVPKEVTAGLDTVAVRXPAHPIALQLIRESGVPIAAPSAN 146
Query: 166 ESNEPS-TLCINEFQKLWSQLSVVIDGG 192
+ PS T + L ++ V+IDGG
Sbjct: 147 LATRPSPTKAEDVIVDLNGRVDVIIDGG 174
>pdb|1HRU|A Chain A, The Structure Of The Yrdc Gene Product From E.Coli
pdb|1HRU|B Chain B, The Structure Of The Yrdc Gene Product From E.Coli
Length = 188
Score = 67.0 bits (162), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 67/146 (45%), Gaps = 3/146 (2%)
Query: 49 VVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHT---VS 105
V+A PT+ ++G+ CD + A+ L E+K+R V+K L + + + + D V
Sbjct: 22 VIAYPTEAVFGVGCDPDSETAVXRLLELKQRPVDKGLILIAANYEQLKPYIDDTXLTDVQ 81
Query: 106 FELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSAN 165
E + PGPVT VF L +AVR+ DH + L + PL TSAN
Sbjct: 82 RETIFSRWPGPVTFVFPAPATTPRWLTGRFDSLAVRVTDHPLVVALCQAYGKPLVSTSAN 141
Query: 166 ESNEPSTLCINEFQKLWSQLSVVIDG 191
S P ++E + + V+ G
Sbjct: 142 LSGLPPCRTVDEVRAQFGAAFPVVPG 167
>pdb|1KK9|A Chain A, Crystal Structure Of E. Coli Ycio
Length = 221
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/179 (22%), Positives = 80/179 (44%), Gaps = 11/179 (6%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G V+ PTD+ Y L C + A + I++ + +++++ ++ V+F
Sbjct: 42 GGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTYSFVDNVAF 101
Query: 107 ELLAELLPGPVTIVFNRSEHLNLELNPNVTK-VAVRIPDHKFLRQLLKLMDSPLALTS-- 163
L PG T + ++ + L K + R+P + + LL+ + P TS
Sbjct: 102 RLXKNNTPGNYTFILKGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALGEPXLSTSLX 161
Query: 164 --ANESNEPSTLCINEFQKLWSQLSVVIDGGIISNPERFGSTIVDLSEENVYSIVRKGV 220
+E E I + +L Q+ ++I GG + +T++DL+++ +VR+GV
Sbjct: 162 LPGSEFTESDPEEIKD--RLEKQVDLIIHGGYLGQKP---TTVIDLTDDTPV-VVREGV 214
>pdb|1K7J|A Chain A, Structural Genomics, Protein Tf1
Length = 206
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 40/179 (22%), Positives = 80/179 (44%), Gaps = 11/179 (6%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G V+ PTD+ Y L C + A + I++ + +++++ ++ V+F
Sbjct: 27 GGVIVYPTDSGYALGCKIEDKNAXERICRIRQLPDGHNFTLXCRDLSELSTYSFVDNVAF 86
Query: 107 ELLAELLPGPVTIVFNRSEHLNLELNPNVTK-VAVRIPDHKFLRQLLKLMDSPLALTS-- 163
L PG T + ++ + L K + R+P + + LL+ + P TS
Sbjct: 87 RLXKNNTPGNYTFILKGTKEVPRRLLQEKRKTIGXRVPSNPIAQALLEALGEPXLSTSLX 146
Query: 164 --ANESNEPSTLCINEFQKLWSQLSVVIDGGIISNPERFGSTIVDLSEENVYSIVRKGV 220
+E E I + +L Q+ ++I GG + +T++DL+++ +VR+GV
Sbjct: 147 LPGSEFTESDPEEIKD--RLEKQVDLIIHGGYLGQKP---TTVIDLTDDTPV-VVREGV 199
>pdb|3VTH|A Chain A, Crystal Structure Of Full-Length Hypf In The Phosphate-
And Nucleotide-Bound Form
pdb|3VTH|B Chain B, Crystal Structure Of Full-Length Hypf In The Phosphate-
And Nucleotide-Bound Form
pdb|3VTI|A Chain A, Crystal Structure Of Hype-Hypf Complex
pdb|3VTI|B Chain B, Crystal Structure Of Hype-Hypf Complex
Length = 761
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 31/124 (25%), Positives = 59/124 (47%), Gaps = 2/124 (1%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G +VA+ + LA +A + +A+ L KKR KP A+ + ++ ++ K+
Sbjct: 215 GKIVAIKGIGGFHLAVNALDDEAVATLRRRKKR-YGKPFAVMMRDVEEVKKYCIVSPEEE 273
Query: 107 ELLAELLPGPVTIVFNRSEHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANE 166
LL P+ ++ + E L + ++ + V +P L++ +D P+ +TS N
Sbjct: 274 RLLLSQRR-PIVLLKKKGEKLAKGIADDLDTLGVMLPYAPIHYLLMEEIDFPIVMTSGNV 332
Query: 167 SNEP 170
S EP
Sbjct: 333 SEEP 336
>pdb|3TSP|A Chain A, Crystal Structure Of E. Coli Hypf
pdb|3TSU|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Pnp And
Carbamoyl Phosphate
pdb|3TTC|A Chain A, Crystal Structure Of E. Coli Hypf With Adp And Carbamoyl
Phosphate
pdb|3TTF|A Chain A, Crystal Structure Of E. Coli Hypf With Amp And Carbamoyl
Phosphate
Length = 657
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 49/168 (29%), Positives = 75/168 (44%), Gaps = 15/168 (8%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G +VA+ + LACDA NS A+ L K R KPLA+ + +P A
Sbjct: 124 GNIVAIKGIGGFHLACDARNSNAVATLRARKHRPA-KPLAVMLPVADGLPDAA------- 175
Query: 107 ELLAELLPGPVTIVFNRS-EHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSAN 165
L P+ +V + L ++ P + +V V +P + LL+ + PL +TS N
Sbjct: 176 RQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPLVMTSGN 235
Query: 166 ESNEPSTLCINEFQKLWSQLSVVIDGGIISNP---ERFGSTIVDLSEE 210
S +P I+ Q L L + DG +I N +R ++V S E
Sbjct: 236 LSGKPPA--ISNEQAL-EDLQGIADGFLIHNRDIVQRMDDSVVRESGE 280
>pdb|3TSQ|A Chain A, Crystal Structure Of E. Coli Hypf With Atp And Carbamoyl
Phosphate
pdb|3TTD|A Chain A, Crystal Structure Of E. Coli Hypf With Amp-Cpp And
Carbamoyl Phosphate
Length = 658
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 49/168 (29%), Positives = 75/168 (44%), Gaps = 15/168 (8%)
Query: 47 GCVVALPTDTLYGLACDATNSKAINILYEIKKRDVNKPLAICVSEITDIPKWADTHTVSF 106
G +VA+ + LACDA NS A+ L K R KPLA+ + +P A
Sbjct: 124 GNIVAIKGIGGFHLACDARNSNAVATLRARKHRPA-KPLAVMLPVADGLPDAA------- 175
Query: 107 ELLAELLPGPVTIVFNRS-EHLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSAN 165
L P+ +V + L ++ P + +V V +P + LL+ + PL +TS N
Sbjct: 176 RQLLTTPAAPIVLVDKKYVPELCDDIAPGLNEVGVMLPANPLQHLLLQELQCPLVMTSGN 235
Query: 166 ESNEPSTLCINEFQKLWSQLSVVIDGGIISNP---ERFGSTIVDLSEE 210
S +P I+ Q L L + DG +I N +R ++V S E
Sbjct: 236 LSGKPPA--ISNEQAL-EDLQGIADGFLIHNRDIVQRMDDSVVRESGE 280
>pdb|3PKM|A Chain A, Crystal Structure Of Cas6 With Its Substrate Rna
pdb|3PKM|X Chain X, Crystal Structure Of Cas6 With Its Substrate Rna
Length = 269
Score = 30.8 bits (68), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 19/54 (35%), Positives = 31/54 (57%), Gaps = 2/54 (3%)
Query: 171 STLCINEFQKLWSQLSVVIDGGIISNPERF-GSTIVDLSEENVYSIVRKGVCYD 223
+ L +N +LW + + + ++ P++F GST V LS V ++VRKG YD
Sbjct: 101 NGLLMNPEVRLWDERFYLHEIKVLREPKKFNGSTFVTLSPIAV-TVVRKGKSYD 153
>pdb|3I4H|X Chain X, Crystal Structure Of Cas6 In Pyrococcus Furiosus
Length = 273
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 2/52 (3%)
Query: 173 LCINEFQKLWSQLSVVIDGGIISNPERF-GSTIVDLSEENVYSIVRKGVCYD 223
L +N +LW + + + ++ P++F GST V LS V ++VRKG YD
Sbjct: 107 LLMNPEVRLWDERFYLHEIKVLREPKKFNGSTFVTLSPIAV-TVVRKGKSYD 157
>pdb|1NZI|A Chain A, Crystal Structure Of The Cub1-Egf Interaction Domain Of
Complement Protease C1s
pdb|1NZI|B Chain B, Crystal Structure Of The Cub1-Egf Interaction Domain Of
Complement Protease C1s
Length = 159
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 126 HLNLELNPNVTKVAVRIPDHKFLRQLLKLMDSPLALTSANESNEPSTLCINEFQKLWSQL 185
HL++EL+ N +V Q++ L SN P + + EFQ +++L
Sbjct: 41 HLDIELSENCAYDSV---------QIISGDTEEGRLCGQRSSNNPHSPIVEEFQVPYNKL 91
Query: 186 SVVIDGGIISNPERF 200
V+ SN ERF
Sbjct: 92 QVIFKSD-FSNEERF 105
>pdb|1LNL|A Chain A, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
pdb|1LNL|B Chain B, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
pdb|1LNL|C Chain C, Structure Of Deoxygenated Hemocyanin From Rapana
Thomasiana
Length = 408
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 14/27 (51%)
Query: 81 VNKPLAICVSEITDIPKWADTHTVSFE 107
NK A CV + P+W +TV FE
Sbjct: 55 ANKAFACCVHGMATFPEWHRLYTVQFE 81
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
0.321 0.138 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,812,220
Number of Sequences: 62578
Number of extensions: 252285
Number of successful extensions: 563
Number of sequences better than 100.0: 15
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 546
Number of HSP's gapped (non-prelim): 15
length of query: 245
length of database: 14,973,337
effective HSP length: 96
effective length of query: 149
effective length of database: 8,965,849
effective search space: 1335911501
effective search space used: 1335911501
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: 50 (23.9 bits)