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= psy12424
(324 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3FD5|A Chain A, Crystal Structure Of Human Selenophosphate Synthetase 1
Complex With Ampcp
pdb|3FD5|B Chain B, Crystal Structure Of Human Selenophosphate Synthetase 1
Complex With Ampcp
pdb|3FD6|A Chain A, Crystal Structure Of Human Selenophosphate Synthetase 1
Complex With Adp And Phosphate
pdb|3FD6|B Chain B, Crystal Structure Of Human Selenophosphate Synthetase 1
Complex With Adp And Phosphate
Length = 394
Score = 290 bits (743), Expect = 6e-79, Method: Compositional matrix adjust.
Identities = 146/325 (44%), Positives = 208/325 (64%), Gaps = 14/325 (4%)
Query: 3 GYSLVRIEIGLDSCIIPLASGRSPSPLYLIQSTDFFYPLVTHPHIMGAIACANVLSDIYA 62
G + R+ IG+D+C+IPL G L L+Q+TD+ YP+V P++MG IACANVLSD+YA
Sbjct: 60 GAVMPRLGIGMDTCVIPLRHGG----LSLVQTTDYIYPIVDDPYMMGRIACANVLSDLYA 115
Query: 63 VGVTDIDALQMIVGISTQLTEDERDIIVPMLIEGFKAQASVAGVNISKVAVKLNPWMTIG 122
+GVT+ D + M++G+S ++T+ ERD ++P++I+GFK A AG +++ LNPW+ +G
Sbjct: 116 MGVTECDNMLMLLGVSNKMTDRERDKVMPLIIQGFKDAAEEAGTSVTGGQTVLNPWIVLG 175
Query: 123 GVVTSVCSSEEFVMPNQAQPGDVIILTKPLGTQMSVTIRSWLKNEEKLSFLKSIKVDSAM 182
GV T+VC EF+MP+ A PGDV++LTKPLGTQ++V + WL EK + +K + V
Sbjct: 176 GVATTVCQPNEFIMPDNAVPGDVLVLTKPLGTQVAVAVHQWLDIPEKWNKIKLV-VTQED 234
Query: 183 LKQCVNSAITLMATINKKAAILMKKYNAHACTDVTGYGLTGHATNLVKYQTNSVNFMIHT 242
++ A+ MA +N+ AA LM +NAHA TD+TG+G+ GHA NL K Q N V+F+IH
Sbjct: 235 VELAYQEAMMNMARLNRTAAGLMHTFNAHAATDITGFGILGHAQNLAKQQRNEVSFVIHN 294
Query: 243 LPILYPLGVIASRPGTRFYQNVNRGHGIETSGGLFICLPEDHAKDFIKEMNG-------L 295
LP+L + ++ G F + G ETSGGL ICLP + A F E+
Sbjct: 295 LPVLAKMAAVSKACGNMF--GLMHGTCPETSGGLLICLPREQAARFCAEIKSPKYGEGHQ 352
Query: 296 AWIIGKVTPGDRSVIIKDSPDIFHV 320
AWIIG V G+R+ I D P I V
Sbjct: 353 AWIIGIVEKGNRTARIIDKPRIIEV 377
>pdb|2ZAU|A Chain A, Crystal Structure Of An N-Terminally Truncated
Selenophosphate Synthetase From Aquifex Aeolicus
pdb|2ZAU|B Chain B, Crystal Structure Of An N-Terminally Truncated
Selenophosphate Synthetase From Aquifex Aeolicus
pdb|2ZAU|C Chain C, Crystal Structure Of An N-Terminally Truncated
Selenophosphate Synthetase From Aquifex Aeolicus
Length = 311
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 83/293 (28%), Positives = 134/293 (45%), Gaps = 45/293 (15%)
Query: 32 IQSTDFFYPLVTHPHIMGAIACANVLSDIYAVGVTDIDALQMIVGISTQLT-EDERDIIV 90
+ + D P+V P++ GAI+ AN LSD+YA+G ++AL + + +L E R++I
Sbjct: 31 VYTVDIITPVVNDPYLWGAISTANALSDVYAMGGIPVNALAISCFNNCELDIEIFREVIR 90
Query: 91 PMLIEGFKAQASV-AGVNISKVAVKLNPWMTIGGVVTSVCSSEEFVMPNQAQPGDVIILT 149
L + +A+ + G I K G V +C +++ + AQ G ++ILT
Sbjct: 91 GALDKLREAKTVLLGGHTIDDKEPKF------GLSVAGICPEGKYITQSGAQVGQLLILT 144
Query: 150 KPLGTQMSVTIRSWLKNEEKLSFLKSIKVDSAMLKQCVNSAITLMATINKKAAILMKKYN 209
KP+GT + +K +K + + ++ +N AI M +N KA LM +
Sbjct: 145 KPIGTGI---------------LIKGLK-EGILKEEDINEAIENMLALNDKARNLMLSLD 188
Query: 210 AHACTDVTGYGLTGHATNLVKYQTNSVNFMIHTLPI-----------LYPLGVIASRPGT 258
A ACTDVTG+GL GHA N+ K +P +YP G I +
Sbjct: 189 ATACTDVTGFGLLGHAWNICKNSNIGARIFFEKVPYYQLSENLVKKKIYPKGAIENLNFV 248
Query: 259 RFYQNVNRGHGI-------ETSGGLFICLPEDHAK---DFIKEMNGLAWIIGK 301
+ Y N + TSGGL + ++ + + KE+ WIIG+
Sbjct: 249 KNYLKSNLDNWKLILLSDPVTSGGLLFTINKEKLEKIDETAKELEVNYWIIGE 301
>pdb|2YYE|A Chain A, Crystal Structure Of Selenophosphate Synthetase From
Aquifex Aeolicus Complexed With Ampcpp
pdb|2YYE|B Chain B, Crystal Structure Of Selenophosphate Synthetase From
Aquifex Aeolicus Complexed With Ampcpp
pdb|2ZOD|A Chain A, Crystal Structure Of Selenophosphate Synthetase From
Aquifex Aeolicus
pdb|2ZOD|B Chain B, Crystal Structure Of Selenophosphate Synthetase From
Aquifex Aeolicus
Length = 345
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 83/293 (28%), Positives = 134/293 (45%), Gaps = 45/293 (15%)
Query: 32 IQSTDFFYPLVTHPHIMGAIACANVLSDIYAVGVTDIDALQMIVGISTQLT-EDERDIIV 90
+ + D P+V P++ GAI+ AN LSD+YA+G ++AL + + +L E R++I
Sbjct: 65 VYTVDIITPVVNDPYLWGAISTANALSDVYAMGGIPVNALAISCFNNCELDIEIFREVIR 124
Query: 91 PMLIEGFKAQASV-AGVNISKVAVKLNPWMTIGGVVTSVCSSEEFVMPNQAQPGDVIILT 149
L + +A+ + G I K G V +C +++ + AQ G ++ILT
Sbjct: 125 GALDKLREAKTVLLGGHTIDDKEPKF------GLSVAGICPEGKYITQSGAQVGQLLILT 178
Query: 150 KPLGTQMSVTIRSWLKNEEKLSFLKSIKVDSAMLKQCVNSAITLMATINKKAAILMKKYN 209
KP+GT + +K +K + + ++ +N AI M +N KA LM +
Sbjct: 179 KPIGTGI---------------LIKGLK-EGILKEEDINEAIENMLALNDKARNLMLSLD 222
Query: 210 AHACTDVTGYGLTGHATNLVKYQTNSVNFMIHTLPI-----------LYPLGVIASRPGT 258
A ACTDVTG+GL GHA N+ K +P +YP G I +
Sbjct: 223 ATACTDVTGFGLLGHAWNICKNSNIGARIFFEKVPYYQLSENLVKKKIYPKGAIENLNFV 282
Query: 259 RFYQNVNRGHGI-------ETSGGLFICLPEDHAK---DFIKEMNGLAWIIGK 301
+ Y N + TSGGL + ++ + + KE+ WIIG+
Sbjct: 283 KNYLKSNLDNWKLILLSDPVTSGGLLFTINKEKLEKIDETAKELEVNYWIIGE 335
>pdb|3U0O|A Chain A, The Crystal Structure Of Selenophosphate Synthetase From
E. Coli
pdb|3U0O|B Chain B, The Crystal Structure Of Selenophosphate Synthetase From
E. Coli
Length = 347
Score = 72.8 bits (177), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 87/327 (26%), Positives = 134/327 (40%), Gaps = 47/327 (14%)
Query: 6 LVRIEIGLDSCIIPLASGRSPSPLYLIQSTDFFYPLVTHPHIMGAIACANVLSDIYAVGV 65
LV E D+ + L +G S +I +TDFF P+V +P G IA N +SDI+A+G
Sbjct: 43 LVGNETRDDAAVYDLGNGTS-----VISTTDFFMPIVDNPFDFGRIAATNAISDIFAMGG 97
Query: 66 TDIDALQMIVGISTQLTEDERDIIVPMLIEGFKAQASVAGVNISKVAVKLNPWMTIGGVV 125
I A+ ++ +L+ + I + EG + AG+ ++ P G V
Sbjct: 98 KPIMAIAILGWPINKLSPE----IAREVTEGGRYACRQAGIALAGGHSIDAPEPIFGLAV 153
Query: 126 TSVCSSEEFVMPNQAQPGDVIILTKPLGTQMSVTIRSWLKNEEKLSFLKSIKVDSAMLKQ 185
T + +E + AQ G + LTKPLG + L EK S LK +
Sbjct: 154 TGIVPTERVKKNSTAQAGCKLFLTKPLGIGV-------LTTAEKKSLLKP---------E 197
Query: 186 CVNSAITLMATINKKAAILMKKYNAHACTDVTGYGLTGHATNLVK---YQTNSVNFMIHT 242
A +M +N A A TDVTG+GL GH + + + Q I
Sbjct: 198 HQGLATEVMCRMNIAGASFANIEGVKAMTDVTGFGLLGHLSEMCQGAGVQARVDYEAIPK 257
Query: 243 LPILYPLGVIASRPGTRFYQNVNRGHGI--------------ETSGGLFICL---PEDHA 285
LP + + + PG + GH + +TSGGL + + E+
Sbjct: 258 LPGVEEYIKLGAVPGGTERNFASYGHLMGEMPREVRDLLCDPQTSGGLLLAVMPEAENEV 317
Query: 286 KDFIKEMNGLAWIIGKVTP--GDRSVI 310
K E IG++ P G R+++
Sbjct: 318 KATAAEFGIELTAIGELVPARGGRAMV 344
>pdb|1D2P|A Chain A, Crystal Structure Of Two B Repeat Units (B1b2) Of The
Collagen Binding Protein (Cna) Of Staphylococcus Aureus
Length = 373
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 279 CLPEDHAKDFIKEMNGLAWIIGKVTPGDRSVII 311
+ EDH KD+ ++NG I K TPG+ S +
Sbjct: 66 TVTEDHVKDYTTDINGTT-ITNKYTPGETSATV 97
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 279 CLPEDHAKDFIKEMNGLAWIIGKVTPGDRSVII 311
+ EDH KD+ ++NG I K TPG+ S +
Sbjct: 253 TVTEDHVKDYTTDINGTT-ITNKYTPGETSATV 284
>pdb|1D2O|A Chain A, Crystal Structure Of A Single B Repeat Unit (B1) Of
Collagen Binding Surface Protein (Cna) Of Staphylococcus
Aureus.
pdb|1D2O|B Chain B, Crystal Structure Of A Single B Repeat Unit (B1) Of
Collagen Binding Surface Protein (Cna) Of Staphylococcus
Aureus
Length = 187
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 279 CLPEDHAKDFIKEMNGLAWIIGKVTPGDRSVII 311
+ EDH KD+ ++NG I K TPG+ S +
Sbjct: 66 TVTEDHVKDYTTDINGTT-ITNKYTPGETSATV 97
>pdb|3LXD|A Chain A, Crystal Structure Of Ferredoxin Reductase Arr From
Novosphingobium Aromaticivorans
Length = 415
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 54/127 (42%), Gaps = 15/127 (11%)
Query: 186 CVNSAITLMATINKK--AAILMKKYNAHACTDVT-GYGLTG--HATNLVKYQTNSVNFMI 240
CV + + + + K A LM + +A A V G G G A L K+ N ++
Sbjct: 124 CVGADLAGVHAVRTKEDADRLMAELDAGAKNAVVIGGGYIGLEAAAVLTKFGVNVT--LL 181
Query: 241 HTLPILYPLGVIASRPGTRFYQNVNRGHGIE-TSGGLFICLPEDHAKDFIKEMNGLAWII 299
LP + L +A + FYQ +R HG++ +G C+ D K + G+
Sbjct: 182 EALPRV--LARVAGEALSEFYQAEHRAHGVDLRTGAAMDCIEGDGTK-----VTGVRMQD 234
Query: 300 GKVTPGD 306
G V P D
Sbjct: 235 GSVIPAD 241
>pdb|3KDF|A Chain A, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
pdb|3KDF|C Chain C, X-Ray Crystal Structure Of The Human Replication Protein A
C From Wheat Germ Cell Free Expression
Length = 121
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 183 LKQCVNSAITLMATINKKAAILMKKYNAHACTDVTGYGLTGHATNLVKYQTNSVNFMIHT 242
L + ++ + ++ + KA IL CT + H +L Y N +IH
Sbjct: 59 LDEEISGIVEVVGRVTAKATIL--------CTSYVQFKEDSHPFDLGLY--NEAVKIIHD 108
Query: 243 LPILYPLGVI 252
P YPLG++
Sbjct: 109 FPQFYPLGIV 118
>pdb|2PI2|E Chain E, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|F Chain F, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|G Chain G, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PI2|H Chain H, Full-Length Replication Protein A Subunits Rpa14 And Rpa32
pdb|2PQA|B Chain B, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
pdb|2PQA|D Chain D, Crystal Structure Of Full-Length Human Rpa 1432
HETERODIMER
pdb|2Z6K|C Chain C, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
pdb|2Z6K|D Chain D, Crystal Structure Of Full-Length Human Rpa1432 HETERODIMER
Length = 142
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 183 LKQCVNSAITLMATINKKAAILMKKYNAHACTDVTGYGLTGHATNLVKYQTNSVNFMIHT 242
L + ++ + ++ + KA IL CT + H +L Y N +IH
Sbjct: 80 LDEEISGIVEVVGRVTAKATIL--------CTSYVQFKEDSHPFDLGLY--NEAVKIIHD 129
Query: 243 LPILYPLGVI 252
P YPLG++
Sbjct: 130 FPQFYPLGIV 139
>pdb|1QUQ|B Chain B, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
pdb|1QUQ|D Chain D, Complex Of Replication Protein A Subunits Rpa14 And Rpa32
pdb|1L1O|A Chain A, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
pdb|1L1O|D Chain D, Structure Of The Human Replication Protein A (Rpa)
Trimerization Core
Length = 121
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%), Gaps = 10/70 (14%)
Query: 183 LKQCVNSAITLMATINKKAAILMKKYNAHACTDVTGYGLTGHATNLVKYQTNSVNFMIHT 242
L + ++ + ++ + KA IL CT + H +L Y N +IH
Sbjct: 59 LDEEISGIVEVVGRVTAKATIL--------CTSYVQFKEDSHPFDLGLY--NEAVKIIHD 108
Query: 243 LPILYPLGVI 252
P YPLG++
Sbjct: 109 FPQFYPLGIV 118
>pdb|3ATY|A Chain A, Crystal Structure Of Tcoye
pdb|3ATY|B Chain B, Crystal Structure Of Tcoye
pdb|3ATZ|A Chain A, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|B Chain B, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|C Chain C, Crystal Structure Of Tcoye With Phba
pdb|3ATZ|D Chain D, Crystal Structure Of Tcoye With Phba
Length = 379
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 76 GISTQLTEDE-RDIIVPMLIEGFKAQASVAGVN 107
G+ +LT+DE RD I+P+ +EG K AG +
Sbjct: 158 GVPEELTDDEVRDGIIPLFVEGAKNAIFKAGFD 190
>pdb|2Q6T|A Chain A, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|B Chain B, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|C Chain C, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
pdb|2Q6T|D Chain D, Crystal Structure Of The Thermus Aquaticus Dnab Monomer
Length = 444
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 42/94 (44%), Gaps = 8/94 (8%)
Query: 15 SCIIPLASGRSPSPLYLIQSTDFFYPLVTHPHIMGAIACANVLSDIYAVGVTDIDALQMI 74
S ++ +AS S +P+Y+ + D +M A A L VG+ ID LQ++
Sbjct: 271 SRLVDVASRLSEAPIYIDDTPDLT--------LMEVRARARRLVSQNQVGLIIIDYLQLM 322
Query: 75 VGISTQLTEDERDIIVPMLIEGFKAQASVAGVNI 108
G + + + R + + G KA A G+ I
Sbjct: 323 SGPGSGKSGENRQQEIAAISRGLKALARELGIPI 356
>pdb|3UQY|L Chain L, H2-Reduced Structure Of E. Coli Hydrogenase-1
pdb|3UQY|M Chain M, H2-Reduced Structure Of E. Coli Hydrogenase-1
pdb|3USC|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In A
Ferricyanide-Oxidized Form
pdb|3USC|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In A
Ferricyanide-Oxidized Form
pdb|3USE|L Chain L, Crystal Structure Of E. Coli Hydrogenase-1 In Its
As-Isolated Form
pdb|3USE|M Chain M, Crystal Structure Of E. Coli Hydrogenase-1 In Its
As-Isolated Form
pdb|4GD3|L Chain L, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|M Chain M, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|J Chain J, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
pdb|4GD3|K Chain K, Structure Of E. Coli Hydrogenase-1 In Complex With
Cytochrome B
Length = 582
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 37/73 (50%), Gaps = 3/73 (4%)
Query: 44 HPH-IMGAIACANVLSDIYAVGVTDIDALQMIVGISTQLTEDERDIIVP--MLIEGFKAQ 100
HP+ I+G + CA + + AVG +++ L ++ I T+ + ++++P + I F
Sbjct: 229 HPNWIVGGMPCAINIDESGAVGAVNMERLNLVQSIITRTADFINNVMIPDALAIGQFNKP 288
Query: 101 ASVAGVNISKVAV 113
S G +S V
Sbjct: 289 WSEIGTGLSDKCV 301
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 0.137 0.405
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,304,025
Number of Sequences: 62578
Number of extensions: 362440
Number of successful extensions: 817
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 802
Number of HSP's gapped (non-prelim): 17
length of query: 324
length of database: 14,973,337
effective HSP length: 99
effective length of query: 225
effective length of database: 8,778,115
effective search space: 1975075875
effective search space used: 1975075875
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: 51 (24.3 bits)