RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4056
(227 letters)
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 40.4 bits (94), Expect = 3e-04
Identities = 40/263 (15%), Positives = 73/263 (27%), Gaps = 91/263 (34%)
Query: 22 GGTGILLHRNNYDVNSLVAVRLVRAASCV---FNIAYIYKKALY------QKATPDPTSE 72
G TG LV + F L+ +A P+ +
Sbjct: 269 GATGH--------SQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLP 320
Query: 73 EYSNLKSKVHKEAA------------EQLLELC-KMNKGVYIKVGQHI------------ 107
S + E EQ+ + K N ++ G+ +
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNS--HLPAGKQVEISLVNGAKNLV 378
Query: 108 --G---ALEYL---LPKEYVETM----KVLHSK-------------APM-SP-MKDILAV 140
G +L L L K + ++ S+ +P S + +
Sbjct: 379 VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL 438
Query: 141 LKEDLGKDPSEIFASIEPNPMGAASLA-QVHKATLHDGSTIALKVQHRNVRDNANIDIKC 199
+ +DL K+ A + V+ T DGS + R + + + I
Sbjct: 439 INKDLVKNNVSFNAK---------DIQIPVY-DT-FDGSDL------RVLSGSISERI-V 480
Query: 200 MEALVHVVAW-VFPEFKFLWLVD 221
+ V W +FK ++D
Sbjct: 481 DCIIRLPVKWETTTQFKATHILD 503
Score = 35.8 bits (82), Expect = 0.010
Identities = 41/196 (20%), Positives = 68/196 (34%), Gaps = 71/196 (36%)
Query: 28 LHRNNYDVNSLVA-------------VRLVRA---ASCVFNIAY--IYKKALYQKA---- 65
L N D+++L A L++ A + + AL++
Sbjct: 96 LEGN--DIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGN 153
Query: 66 -----------TPDPTSEE-------YSNLKSKVHKEAAEQLLELCKMN---KGVYIKVG 104
D EE Y L + K +AE L EL + + V+ + G
Sbjct: 154 AQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFTQ-G 212
Query: 105 QHIGA-LEY---LLPKEYVETMKVLHSKAPMS-PMKDI----LA---VLKEDLGKDPSEI 152
+I LE K+Y+ + P+S P+ I LA V + LG P E+
Sbjct: 213 LNILEWLENPSNTPDKDYLLS-------IPISCPL--IGVIQLAHYVVTAKLLGFTPGEL 263
Query: 153 FASIEPNPMGAASLAQ 168
+ ++ GA +Q
Sbjct: 264 RSYLK----GATGHSQ 275
Score = 35.0 bits (80), Expect = 0.018
Identities = 35/189 (18%), Positives = 58/189 (30%), Gaps = 69/189 (36%)
Query: 33 YDVNSLVAVRLV--RAASCV-----FNIAYIYKKALYQKATPDPTS-------------- 71
Y S A + V RA + F+I I +P +
Sbjct: 1636 YK-TSKAA-QDVWNRADNHFKDTYGFSILDIVIN--------NPVNLTIHFGGEKGKRIR 1685
Query: 72 EEYSNLKSKVHKEAAEQLLELCKMNKGVYIKVGQHIGALEYLLPKEYV-ET------MKV 124
E YS + + + + ++ K ++ +H + + K + T +
Sbjct: 1686 ENYSAMIFETIVDGKLKTEKIFK-------EINEHSTSYTFRSEKGLLSATQFTQPAL-T 1737
Query: 125 LHSKAPMSPMKDILAVLKEDLGKDPSEIFA--SIEPNPMG---A-ASLAQVHKATLHDGS 178
L KA LK FA S+ G A ASLA V + S
Sbjct: 1738 LMEKA-------AFEDLKSKGLIPADATFAGHSL-----GEYAALASLADV----MSIES 1781
Query: 179 TIALKVQHR 187
+ + V +R
Sbjct: 1782 LVEV-VFYR 1789
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 32.9 bits (74), Expect = 0.093
Identities = 33/212 (15%), Positives = 58/212 (27%), Gaps = 74/212 (34%)
Query: 50 VFNIAYIYKKALYQKATPDPTSEEYSNLKSKVHKEA----------AEQLLELCKMNKGV 99
+F ++ + QK + Y L S + E EQ L N+ V
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQ-V 125
Query: 100 YIK--------VGQHIGALEYLLPKEYVETMKVLHSKAPMSPM----KDILA--VLKED- 144
+ K + AL L P + V ++ + K +A V
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNV----LIDG------VLGSGKTWVALDVCLSYK 175
Query: 145 -LGKDPSEIF---------------------ASIEPNPMGAASLAQVHKATLHDGST--- 179
K +IF I+PN + + K +H
Sbjct: 176 VQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELR 235
Query: 180 --IALKVQH-------RNVRDNANI---DIKC 199
+ K + NV++ ++ C
Sbjct: 236 RLLKSK-PYENCLLVLLNVQNAKAWNAFNLSC 266
>3ju1_A Enoyl-COA hydratase/isomerase family protein; alpha-beta structure,
structural genomics, PSI-2, protein ST initiative; HET:
MSE; 2.30A {Shewanella oneidensis}
Length = 407
Score = 30.9 bits (70), Expect = 0.36
Identities = 8/78 (10%), Positives = 26/78 (33%), Gaps = 2/78 (2%)
Query: 125 LHSKAPMSPMKDILAVLKEDLGKDPSEIFASIEPNPMGAASLAQVHKATLHDGSTIALKV 184
+ S + + ++ + ++I + + AT+ GS I+ +
Sbjct: 266 VDIPKGDSVLAESQEMIDRLMAGSLTDIVTRMSTLS-TDEAWLSKACATMLAGSPISWHL 324
Query: 185 QHRNVRDNANIDIK-CME 201
+ + + + C +
Sbjct: 325 AYIQTQLGTKLSLAQCFK 342
>3d1u_A Putative fructosamine-3-kinase; YP_290396.1, structural genomics,
joint center for structural genomics, JCSG, protein
structure initiative; 1.85A {Thermobifida fusca} PDB:
3f7w_A
Length = 288
Score = 27.3 bits (60), Expect = 3.7
Identities = 8/62 (12%), Positives = 23/62 (37%), Gaps = 6/62 (9%)
Query: 134 MKDILAVLKEDLGKDPSEIFASIEPNPMGAASLAQVHKATLHDGSTIALKVQHRNVRDNA 193
+ + A + E G++ A++ +++ L DG+ + +K +
Sbjct: 2 VNSVAARVTELTGRE----VAAVAERGHS--HRWHLYRVELADGTPLFVKALPDDAPALD 55
Query: 194 NI 195
+
Sbjct: 56 GL 57
>3bk2_A RNAse J, metal dependent hydrolase; endoribonuclease,
exoribonuclease, metallo-beta-lactamase; HET: U5P; 2.10A
{Thermus thermophilus} PDB: 3bk1_A* 3t3o_A* 3t3n_A*
Length = 562
Score = 27.1 bits (61), Expect = 6.2
Identities = 8/19 (42%), Positives = 11/19 (57%)
Query: 106 HIGALEYLLPKEYVETMKV 124
HIG L +LLP + + V
Sbjct: 87 HIGGLPFLLPMIFGKESPV 105
>3mt0_A Uncharacterized protein PA1789; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG; HET: MSE; 1.58A {Pseudomonas aeruginosa}
Length = 290
Score = 26.5 bits (58), Expect = 8.0
Identities = 9/45 (20%), Positives = 17/45 (37%), Gaps = 9/45 (20%)
Query: 131 MSPMKDILAVLKEDLGKDPSEIFASIEPNPMGAASLAQVHKATLH 175
M ++ IL V+ + + A +A V ++ LH
Sbjct: 4 MQAIRSILVVI--EPDQLEGLALKR-------AQLIAGVTQSHLH 39
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.319 0.134 0.388
Gapped
Lambda K H
0.267 0.0817 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,421,372
Number of extensions: 199149
Number of successful extensions: 429
Number of sequences better than 10.0: 1
Number of HSP's gapped: 424
Number of HSP's successfully gapped: 24
Length of query: 227
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 137
Effective length of database: 4,188,903
Effective search space: 573879711
Effective search space used: 573879711
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 55 (24.8 bits)