RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8591
(570 letters)
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 81.9 bits (203), Expect = 2e-16
Identities = 24/36 (66%), Positives = 29/36 (80%)
Query: 36 GMEKFFNIKCRTSGKIPDAVVLVTTVRALKMHGGGP 71
G EKF+++KCR +G PDA V+V TVRALKMHGG P
Sbjct: 309 GAEKFYDVKCRYAGFKPDATVIVATVRALKMHGGVP 344
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 80.7 bits (200), Expect = 3e-16
Identities = 20/36 (55%), Positives = 22/36 (61%)
Query: 36 GMEKFFNIKCRTSGKIPDAVVLVTTVRALKMHGGGP 71
G EKF + R G P+A VLV TVRALK HGG
Sbjct: 295 GAEKFIDFVSRVGGFYPNAAVLVATVRALKYHGGAN 330
>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 = 58.7 bits (141), Expect = 4e-09
Identities = 50/369 (13%), Positives = 99/369 (26%), Gaps = 137/369 (37%)
Query: 6 NLFLKISRNFYDTLLHIAYATQP-------------NREYS--------VSGME--KFFN 42
L +I N+ H + ++ Y V + FN
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFN 263
Query: 43 IKCRTSGKIPDAVVLVTTVR----ALKMHGGGPSVVSGQPLKPEYTE----------VST 88
+ C+ L+TT R + + +S T +
Sbjct: 264 LSCKI---------LLTT-RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313
Query: 89 STE---HQGCIKGRGQFSPILL-ICG--LQ---------KHRTSKNKTSMFDVS----QP 129
+ + +P L I ++ KH T++ + S +P
Sbjct: 314 RPQDLPREVL-----TTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368
Query: 130 ITVGKLSKHYRQLCLFVGLFFEVTNPSGVVVSA-------VDFGSGELSNILPGF----L 178
+ K + +L +F P + D ++ ++ L
Sbjct: 369 ---AEYRKMFDRLSVF---------PPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSL 416
Query: 179 VESRQTDES----HDMGHFEYGFPS--------MLIPSYVV--SHSKEDVSRDRISS--- 221
VE +Q ES + + E ++ Y + + +D+ +
Sbjct: 417 VE-KQPKESTISIPSI-YLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFY 474
Query: 222 ---GYTLGVV----RTSGTRML--------NALVTDATVPLKQPSTTMTLHD-------- 258
G+ L + R + RM+ + D+T S TL
Sbjct: 475 SHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYI 534
Query: 259 -DDDDDDEQ 266
D+D E+
Sbjct: 535 CDNDPKYER 543
>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 = 51.2 bits (122), Expect = 8e-07
Identities = 46/306 (15%), Positives = 87/306 (28%), Gaps = 101/306 (33%)
Query: 25 ATQPNREY----SVS----GMEKF--FNIKCRTSGKIPDAVVLVTTVRALKMHGGGPSVV 74
+ P+++Y +S G+ + + + + G P L + ++ H G +V
Sbjct: 223 SNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGE--LRSYLKGATGHSQG--LV 278
Query: 75 S------------------------------GQPLKPEY----TEVSTSTEHQGCIKGRG 100
+ P + + S E+ G
Sbjct: 279 TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLEN-----NEG 333
Query: 101 QFSPILLICGL-----QKHRTSKNKTSMFDVSQPITV----GK----LSKHYRQLCLFVG 147
SP+L I L Q + N + + + G +S + L
Sbjct: 334 VPSPMLSISNLTQEQVQDYVNKTNSH--LPAGKQVEISLVNGAKNLVVSGPPQSLYGLNL 391
Query: 148 LFFEVTNPSGVVVSAVDFGSGELSNILPGFL--------------VESRQTDESHDMGHF 193
+ PSG+ S + F S FL + D + +
Sbjct: 392 TLRKAKAPSGLDQSRIPF-SERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKN--NV 448
Query: 194 EYGFPSMLIPSYVVSHSKEDVSRDRISSGYTLGVVRTSGTRMLNALVTDATVPLKQPSTT 253
+ + IP Y + D G L V+ S + + + +P+K +TT
Sbjct: 449 SFNAKDIQIPVY---DT-FD--------GSDLRVLSGSISERIVDCII--RLPVKWETTT 494
Query: 254 MT--LH 257
H
Sbjct: 495 QFKATH 500
Score = 45.0 bits (106), Expect = 7e-05
Identities = 48/273 (17%), Positives = 71/273 (26%), Gaps = 97/273 (35%)
Query: 4 WRNLFLKISRNFYDTLLHIAYATQ---PNREY--------------------SVSGM--- 37
W + F R L I PN S+S +
Sbjct: 289 WES-FFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQE 347
Query: 38 --EKF---FNIKCRTSGKIPDAVVLVTTVRALKMHGGGPSVVSGQP-----LKPEYTEVS 87
+ + N ++ + LV + L VVSG P L +
Sbjct: 348 QVQDYVNKTNSHLPAGKQV--EISLVNGAKNL--------VVSGPPQSLYGLNLTLRKAK 397
Query: 88 TSTEH-QGCI-------KGRGQFSPI-------LLICGLQKHRTS-KNKTSMFDVSQ-PI 130
+ Q I K +F P+ LL+ F+ I
Sbjct: 398 APSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQI 457
Query: 131 TV-----GKLSKHYRQL----------CLFVG-LFFEVTNPSGVVVSAVDFGSGELSNIL 174
V G R L C+ + +E T +DFG G S +
Sbjct: 458 PVYDTFDGS---DLRVLSGSISERIVDCIIRLPVKWETTTQFKAT-HILDFGPGGASGL- 512
Query: 175 PGFLVESRQTD---------ESHDMGHF-EYGF 197
G L R D + D+ +YGF
Sbjct: 513 -GVLT-HRNKDGTGVRVIVAGTLDINPDDDYGF 543
>1qgr_A Protein (importin beta subunit); transport receptor, nuclear
import, heat motif, NLS-binding; 2.30A {Homo sapiens}
SCOP: a.118.1.1 PDB: 1qgk_A 2p8q_A 2q5d_A 3lww_A 1ukl_A
2qna_A
Length = 876
Score = 32.5 bits (73), Expect = 0.45
Identities = 31/269 (11%), Positives = 84/269 (31%), Gaps = 15/269 (5%)
Query: 250 PSTTMTLHDDDDDDDEQSTIPTKVSKVQSTIPTKVPKVQSIIPTKVPKVQSTIPTKVSKV 309
P T TL D++DD+ P K + V + + I+P +P ++ I +
Sbjct: 324 PILTQTLTKQDENDDDDDWNPCKAAGVCLMLLATCCE-DDIVPHVLPFIKEHIKNPDWRY 382
Query: 310 QSTIPIKVTKVQSTIPTKVPKVQSTIPTKVPKVQSIISTKVPKVQSTIP---TKVSKVQS 366
+ + + ++ + +P + ++ V+ T ++ ++
Sbjct: 383 RDAAVMAFGCILEGPEPSQ--LKPLVIQAMPTLIELMKDPSVVVRDTAAWTVGRICELLP 440
Query: 367 TIPIKVTKVQSIIPTKVPKVQSTIPTKVPKVQSIIPTKVPKVQSIIPTKVPKVQSIIPTK 426
I + ++ + + + P+V S + +
Sbjct: 441 EAAINDVYLAPLLQCLIEGLSAE-----PRVASNVCWAFSSLAEAAYEAADVADDQEEPA 495
Query: 427 V----PKVQSIIPTKVPKVQSTIPTKVSKVQSTIPIKVTKVQSIIPTKVPKVQSTIPTKV 482
+ I+ + + + S + V++ P VQ T +
Sbjct: 496 TYCLSSSFELIVQKLLETTDRPDGHQNNLRSSAYESLMEIVKNSAKDCYPAVQKTTLVIM 555
Query: 483 PKVQSTIPTKVPKVQSTIPTKVPKVQSTI 511
++Q + + ++ + +QS +
Sbjct: 556 ERLQQVLQMESHIQSTSDRIQFNDLQSLL 584
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 32.0 bits (73), Expect = 0.62
Identities = 18/161 (11%), Positives = 45/161 (27%), Gaps = 2/161 (1%)
Query: 257 HDDDDDDDEQSTIPTKVSKVQSTIPTKVPKVQSIIPTKVPKVQSTIPTK--VSKVQSTIP 314
++ D++ E+ + + +S + T + + ++ + V K + +
Sbjct: 15 YELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEKEIADTVWYYYFDVEKSVNYLL 74
Query: 315 IKVTKVQSTIPTKVPKVQSTIPTKVPKVQSIISTKVPKVQSTIPTKVSKVQSTIPIKVTK 374
K + + Q K + S +S ++ P T
Sbjct: 75 QKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDEPAFQTN 134
Query: 375 VQSIIPTKVPKVQSTIPTKVPKVQSIIPTKVPKVQSIIPTK 415
+ + K+ K VP++ K
Sbjct: 135 GEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFEQSNPK 175
>3iox_A AGI/II, PA; alpha helix, PPII helix, supersandwich fold, surface
adhesin WALL, peptidoglycan-anchor, cell adhesion; HET:
PMS; 1.80A {Streptococcus mutans} PDB: 3ipk_A* 1jmm_A
Length = 497
Score = 29.5 bits (64), Expect = 3.9
Identities = 22/144 (15%), Positives = 34/144 (23%)
Query: 233 TRMLNALVTDATVPLKQPSTTMTLHDDDDDDDEQSTIPTKVSKVQSTIPTKVPKVQSIIP 292
T LN + + D D S K+ S
Sbjct: 348 TDTLNFKQGEGGSRWTMYKNSQAGSGWDSSDAPNSWYGAGAIKMSGPNNYVTVGATSATN 407
Query: 293 TKVPKVQSTIPTKVSKVQSTIPIKVTKVQSTIPTKVPKVQSTIPTKVPKVQSIISTKVPK 352
+P K + I + VPKV PT K +
Sbjct: 408 VMPVSDMPVVPGKDNTDGKKPNIWYSLNGKIRAVNVPKVTKEKPTPPVKPTAPTKPTYET 467
Query: 353 VQSTIPTKVSKVQSTIPIKVTKVQ 376
+ P V+ P T+++
Sbjct: 468 EKPLKPAPVAPNYEKEPTPPTRLE 491
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
0.314 0.129 0.362
Gapped
Lambda K H
0.267 0.0399 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 7,470,264
Number of extensions: 416452
Number of successful extensions: 580
Number of sequences better than 10.0: 1
Number of HSP's gapped: 558
Number of HSP's successfully gapped: 16
Length of query: 570
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 471
Effective length of database: 3,937,614
Effective search space: 1854616194
Effective search space used: 1854616194
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 60 (27.8 bits)