RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4196
(168 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 = 46.6 bits (110), Expect = 1e-06
Identities = 41/216 (18%), Positives = 67/216 (31%), Gaps = 82/216 (37%)
Query: 8 GIPGQNFLREALTSCTDPLKAIEEFQLDNGILLPSLRQMLPLLDLHGVRRLDFHNSVLEV 67
G+ EA + + P +E+ L+N +PS ML + L ++
Sbjct: 307 GVRCY----EAYPNTSLPPSILEDS-LENNEGVPSP--ML------SISNLTQ--EQVQD 351
Query: 68 EVTETLNLLLP-------SL----RQML---PLLDLHGV----RR------LD------- 96
V +T N LP SL + ++ P L+G+ R+ LD
Sbjct: 352 YVNKT-NSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFS 410
Query: 97 ----------------FHNSVLEELRDKLVSHIK----EIGQKE----------GRDRDR 126
FH+ +L D + + K+ G D R
Sbjct: 411 ERKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL-R 469
Query: 127 KLNEMLKKSFPLVRVKQLRPV--VMAILRNTTHIDD 160
L+ + + +V PV THI D
Sbjct: 470 VLSGSISER--IVDCIIRLPVKWETTTQFKATHILD 503
Score = 35.4 bits (81), Expect = 0.006
Identities = 48/259 (18%), Positives = 74/259 (28%), Gaps = 113/259 (43%)
Query: 4 LEE-SGIPGQNFLREALTSCTDPLKAIEEFQLDN------------GILLPSLR------ 44
LE S P +++L SC PL I QL + G L L+
Sbjct: 219 LENPSNTPDKDYLLSIPISC--PL--IGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 45 -----------------------QMLPLLDLHGVR------RLDFHNSVLE--VEVTETL 73
+ + +L GVR S+LE +E E
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEG- 333
Query: 74 NLLLPSLRQMLPLLDLH------GVRRLDFH------------NS----VL----EELRD 107
+PS ML + +L V + + H N V+ + L
Sbjct: 334 ---VPSP--MLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLY- 387
Query: 108 KLVSHIKEIGQKEGRD------RDRKLNEMLKKSF---------PLVRVKQLRPVVMAIL 152
L +++ G D +RKL F L L P I
Sbjct: 388 GLNLTLRKAKAPSGLDQSRIPFSERKLK--FSNRFLPVASPFHSHL-----LVPASDLIN 440
Query: 153 ----RNTTHIDDKYLRVLV 167
+N + K +++ V
Sbjct: 441 KDLVKNNVSFNAKDIQIPV 459
>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 = 38.3 bits (88), Expect = 6e-04
Identities = 29/191 (15%), Positives = 61/191 (31%), Gaps = 42/191 (21%)
Query: 12 QNFLREALTSCTDPLKAIEEFQ--LDNGILLPSLRQMLPLLD----LHGVRRLDFHNSVL 65
N+ + S L+ I Q L + L +L + +L
Sbjct: 211 PNWTSRSDHSSNIKLR-IHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKIL 269
Query: 66 ----EVEVTETLNLLL---PSLRQMLPLLDLHGVRRL--DFHNSVLEELRDKLVS----H 112
+VT+ L+ SL L V+ L + + ++L ++++
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 113 IKEIGQ--KEGRDR-DR-------KLNEMLKKSFPLVRVKQLRPVVM-------AILRNT 155
+ I + ++G D KL +++ S + L P ++ +
Sbjct: 330 LSIIAESIRDGLATWDNWKHVNCDKLTTIIESS-----LNVLEPAEYRKMFDRLSVFPPS 384
Query: 156 THIDDKYLRVL 166
HI L ++
Sbjct: 385 AHIPTILLSLI 395
Score = 26.4 bits (57), Expect = 5.9
Identities = 25/147 (17%), Positives = 48/147 (32%), Gaps = 38/147 (25%)
Query: 15 LREALTSCTDPLKAIEE---------FQLDNGILLPSLRQMLPLL----DLHGVRRL--D 59
L + S + L+ E F +P+ +L L+ V +
Sbjct: 355 LTTIIESSLNVLEPAEYRKMFDRLSVFPPS--AHIPT--ILLSLIWFDVIKSDVMVVVNK 410
Query: 60 FHN-SVLE---VEVTETL-NLLLPSLRQMLPLLDLH--------GVRRLDFHNSVLEELR 106
H S++E E T ++ ++ L ++ LH + D + + L
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL- 469
Query: 107 DK-----LVSHIKEIGQKEGRDRDRKL 128
D+ + H+K I E R +
Sbjct: 470 DQYFYSHIGHHLKNIEHPERMTLFRMV 496
>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA
polymerase, hydrolase; 2.30A {Neurospora crassa} PDB:
2j7o_A
Length = 1022
Score = 32.6 bits (73), Expect = 0.056
Identities = 15/125 (12%), Positives = 41/125 (32%), Gaps = 5/125 (4%)
Query: 44 RQMLPLLDLHGVRRLDFHNSVLEVEVTETLNLLLPSLRQMLPLLDLHGVRRLDFHNSVLE 103
Q+LP+L+ ++ ++ + + L + L + ++S
Sbjct: 416 LQLLPVLEDRARDKVKMRQAIGD-RLINDLQRQFSEQKHALNRPVEFRQWVYESYSSRAT 474
Query: 104 ELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKSFPLVRVKQLRPVVMAILRNTTHIDDKYL 163
+ V + + ++ LN ++ F + K L+ + + + L
Sbjct: 475 RVSHGRVPFLAGL----PDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQKRKCDTLKSKL 530
Query: 164 RVLVS 168
+ V
Sbjct: 531 NIRVG 535
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 0.73
Identities = 8/46 (17%), Positives = 22/46 (47%), Gaps = 5/46 (10%)
Query: 102 LEELRD----KLVSHIKEIGQKEGRDRDRKLNEMLKKSFPLVRVKQ 143
L+E D + +E +K+ + +++ +E ++K+ R+
Sbjct: 98 LQE-LDAASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRIAD 142
>3psi_A Transcription elongation factor SPT6; nucleus; 3.30A {Saccharomyces
cerevisiae}
Length = 1219
Score = 26.0 bits (57), Expect = 7.2
Identities = 10/68 (14%), Positives = 21/68 (30%)
Query: 77 LPSLRQMLPLLDLHGVRRLDFHNSVLEELRDKLVSHIKEIGQKEGRDRDRKLNEMLKKSF 136
+L DL + LD L +D + E+ + + N+
Sbjct: 170 REKDGFLLTEDDLWDIVSLDIEFHSLVNKKDYVQRFYAELHIDDPIVTEYFKNQNTASIA 229
Query: 137 PLVRVKQL 144
L ++ +
Sbjct: 230 ELNSLQDI 237
>3psf_A Transcription elongation factor SPT6; nucleus; 2.59A {Saccharomyces
cerevisiae}
Length = 1030
Score = 26.0 bits (57), Expect = 8.6
Identities = 10/77 (12%), Positives = 22/77 (28%), Gaps = 4/77 (5%)
Query: 68 EVTETLNLLLPSLRQMLPLLDLHGVRRLDFHNSVLEELRDKLVSHIKEIGQKEGRDRDRK 127
+ +L DL + LD L +D + E+ + +
Sbjct: 168 NYISSRE----KDGFLLTEDDLWDIVSLDIEFHSLVNKKDYVQRFYAELHIDDPIVTEYF 223
Query: 128 LNEMLKKSFPLVRVKQL 144
N+ L ++ +
Sbjct: 224 KNQNTASIAELNSLQDI 240
>2j4d_A Cryptochrome 3, cryptochrome DASH; DNA-binding protein,
flavoprotein, FAD, mitochondrion, plastid, chromophore,
chloroplast; HET: FAD MHF; 1.9A {Arabidopsis thaliana}
PDB: 2vtb_A* 2ijg_X* 2vtb_B*
Length = 525
Score = 25.7 bits (57), Expect = 9.8
Identities = 28/134 (20%), Positives = 48/134 (35%), Gaps = 25/134 (18%)
Query: 15 LREALTSCTDPLKAIEEFQLDNGILLPSLRQMLPLLDLHGVRRLDFHNSVLEVEVTETLN 74
L +A +S D + + + LD + + P G R F + E L
Sbjct: 58 LYKAWSSS-DTILPV--YCLDPRLFHTTHFFNFPKT---GALRGGF--------LMECLV 103
Query: 75 LLLPSLRQM-LPLLDLHGVRRLDFHNSVLEELRDKL-VSHI---KEIGQKEGRDRDRKLN 129
L +L + L LL +R +L L + KE E D +R +N
Sbjct: 104 DLRKNLMKRGLNLL----IRSGKPEE-ILPSLAKDFGARTVFAHKETCS-EEVDVERLVN 157
Query: 130 EMLKKSFPLVRVKQ 143
+ LK+ +++
Sbjct: 158 QGLKRVGNSTKLEL 171
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
0.322 0.141 0.394
Gapped
Lambda K H
0.267 0.0763 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,654,842
Number of extensions: 159630
Number of successful extensions: 405
Number of sequences better than 10.0: 1
Number of HSP's gapped: 405
Number of HSP's successfully gapped: 25
Length of query: 168
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 81
Effective length of database: 4,272,666
Effective search space: 346085946
Effective search space used: 346085946
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 (21.9 bits)
S2: 54 (24.5 bits)