RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5637
(335 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 = 41.2 bits (96), Expect = 5e-04
Identities = 43/254 (16%), Positives = 75/254 (29%), Gaps = 91/254 (35%)
Query: 27 VVEWCK--SQFSDTQ--CCNPFSW----LVQL--FPI----LDWLPK-----YKWKSDLS 67
++EW + S D P S ++QL + + L + P K + S
Sbjct: 215 ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHS 274
Query: 68 QDIVSGVTIAVVHIPQGVVEWCKSQFSDTQCCNPFSWLVQLFPILDWL--------PKYK 119
Q +V+ V IA W F + + LF ++ P
Sbjct: 275 QGLVTAVAIAETD------SW--ESFFV----SVRKAITVLF----FIGVRCYEAYPNTS 318
Query: 120 WKSDLSQDI-------------VSGVTIAVV--HIPQASSKFGLKENYHITTVGYI---- 160
+ +D +S +T V ++ + +S L + I
Sbjct: 319 LPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSH--LPAGKQV----EISLVN 372
Query: 161 -PTGFPVPEV---PPLWLLPKLIVDGLVIAI--IAFSINISMASILAKKMKYKIDSNQEL 214
V PP L GL + + + + I + K K SN+
Sbjct: 373 GAKNL----VVSGPPQSL------YGLNLTLRKAKAPSGLDQSRIPFSERKLKF-SNR-- 419
Query: 215 LASGFSNIFASFFS 228
F + + F S
Sbjct: 420 ----FLPVASPFHS 429
Score = 39.6 bits (92), Expect = 0.001
Identities = 54/275 (19%), Positives = 86/275 (31%), Gaps = 96/275 (34%)
Query: 51 FPILDWL------PKYKWKSDLSQDIVSGVTIAVVHIPQGVVEWCKSQFSDTQCCNPFSW 104
IL+WL P K L +S I V+ + VV K P
Sbjct: 213 LNILEWLENPSNTPD---KDYLLSIPISCPLIGVIQLAHYVVT-AK-----LLGFTPG-- 261
Query: 105 LVQLFPILDWLPKYKWKSDLSQDIVSGVTIAVVHIPQASSKFGLKENYH--ITTVGYIPT 162
+L L + SQ +V+ V IA + S + IT + +I
Sbjct: 262 --ELRSYLKGA------TGHSQGLVTAVAIA-----ETDSWESFFVSVRKAITVLFFI-- 306
Query: 163 G------FPVPEVPPLWLLPKLIVDGLVIAIIAFSINIS------MASI--LAKK-MKYK 207
G +P +PP +I+ S+ + M SI L ++ ++
Sbjct: 307 GVRCYEAYPNTSLPP--------------SILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 208 IDS-NQELLASGFSNIFASFF----SCV---PFAASLSRSLIQLQ----TGGQTQLASGI 255
++ N L A + S + V P SL + L+ G Q S I
Sbjct: 353 VNKTNSHLPAG--KQVEISLVNGAKNLVVSGP-PQSLYGLNLTLRKAKAPSGLDQ--SRI 407
Query: 256 SCGCLAIVLLYVGPFFQPLP---HGFSNIFASFFS 287
PF + + F + + F S
Sbjct: 408 -------------PFSERKLKFSNRFLPVASPFHS 429
>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION
channel, transport protein, casse protein; 2.00A {Homo
sapiens} PDB: 2onj_A* 2hyd_A
Length = 578
Score = 32.5 bits (75), Expect = 0.17
Identities = 14/79 (17%), Positives = 27/79 (34%), Gaps = 4/79 (5%)
Query: 209 DSNQELLASGFSNIF--ASFFSCVPFAASLSRSLIQLQTGGQTQLASGISCGCLAIVLLY 266
N L + A F+ + + ++ + G ++ I+ G LA + Y
Sbjct: 228 KKNTNFLTRALKHTRWNAYSFAAINTVTDIGPIIV-IGVGAYLAISGSITVGTLAAFVGY 286
Query: 267 VGPFFQPLPHGFSNIFASF 285
+ F PL F +
Sbjct: 287 LELLFGPLRR-LVASFTTL 304
Score = 27.5 bits (62), Expect = 6.5
Identities = 10/53 (18%), Positives = 22/53 (41%), Gaps = 1/53 (1%)
Query: 281 IFASFFSCVPFAASLSRSLIQLQTGGQTQLASGVSCGCLAIVLLYVGPFFQPL 333
A F+ + + ++ + G ++ ++ G LA + Y+ F PL
Sbjct: 243 WNAYSFAAINTVTDIGPIIV-IGVGAYLAISGSITVGTLAAFVGYLELLFGPL 294
>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288;
multidrug transporter, transport protein; HET: ANP;
2.90A {Thermotoga maritima}
Length = 598
Score = 31.4 bits (72), Expect = 0.44
Identities = 23/89 (25%), Positives = 32/89 (35%), Gaps = 7/89 (7%)
Query: 211 NQELLASGFSNIFAS--FFSCVPFAASLSRSLIQLQTGGQTQLASGISCGCLAIVLLYVG 268
N+ L G S + +L +LI GG L I+ G +A + Y
Sbjct: 246 NESLRKVGTKAQIFSGVLPPLMNMVNNLGFALISG-FGGWLALKDIITVGTIATFIGYSR 304
Query: 269 PFFQPLPHGFSNIFASFFSCVPFAASLSR 297
F +PL SN F + AS R
Sbjct: 305 QFTRPLNE-LSNQFNMIQMAL---ASAER 329
>3bm1_A Protein YDJA, nitroreductase; oxidoreductase; HET: FMN; 2.00A
{Escherichia coli} PDB: 3bm2_A
Length = 183
Score = 30.4 bits (69), Expect = 0.51
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 2/40 (5%)
Query: 132 VTIAVVHIPQASSKFGLKENYHITTVGYIPTGFPVPEVPP 171
+ A+ P FG +E I VG++ G P +
Sbjct: 132 RSGALTESPVVREAFGCREQDKI--VGFLYLGTPQLKAST 169
>2i7h_A Nitroreductase-like family protein; alpha-beta, structural
genomics, PSI-2, protein structure in midwest center for
structural genomics, MCSG; HET: MSE FMN; 2.30A {Bacillus
cereus}
Length = 189
Score = 29.6 bits (67), Expect = 1.1
Identities = 7/40 (17%), Positives = 12/40 (30%), Gaps = 2/40 (5%)
Query: 132 VTIAVVHIPQASSKFGLKENYHITTVGYIPTGFPVPEVPP 171
+ + + P GL I VG + G+
Sbjct: 137 KSGGLNYNPLFIEGIGLTRGQRI--VGILHIGYFDKAPEG 174
>1zy4_A Serine/threonine-protein kinase GCN2; translation regulator, signal
transduction, acid starvation, starvation stress
response; 1.95A {Saccharomyces cerevisiae} PDB: 1zy5_A*
1zyd_A* 1zyc_A* 1zxe_A
Length = 303
Score = 29.6 bits (67), Expect = 1.3
Identities = 7/50 (14%), Positives = 17/50 (34%), Gaps = 5/50 (10%)
Query: 256 SCGCLAIVLLYVGPFFQP--LPHGFSNIFASFFSCVP-FAASLSRSLIQL 302
S G + ++Y PF + + + P F + + ++
Sbjct: 216 SLGIIFFEMIY--PFSTGMERVNILKKLRSVSIEFPPDFDDNKMKVEKKI 263
>1uax_A Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid
ribonucleotidohydrolase, hydrolase; 2.00A {Pyrococcus
horikoshii} SCOP: c.55.3.1
Length = 220
Score = 29.5 bits (67), Expect = 1.3
Identities = 12/44 (27%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 163 GFPVPEVPPLWLLPKLI-VDGLVIAII---AFSINISMASILAK 202
V L+ + + VIA A +S ASI+AK
Sbjct: 106 SADVDPKRFASLIKAGLKYEATVIAEHKADAKYEIVSAASIIAK 149
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4)
(RNAse HII), structur genomics, joint center for
structural genomics; 1.74A {Thermotoga maritima} SCOP:
c.55.3.1 PDB: 3o3g_A* 3o3f_A* 3o3h_A*
Length = 250
Score = 29.1 bits (66), Expect = 1.5
Identities = 11/35 (31%), Positives = 16/35 (45%), Gaps = 10/35 (28%)
Query: 178 LIVDGLVI-------AII---AFSINISMASILAK 202
++VDG I ++ S I ASI+AK
Sbjct: 116 VLVDGKGIELSVPGTCLVKGDQKSKLIGAASIVAK 150
>1i39_A Ribonuclease HII, RNAse HII; mixed beta sheet, helix-loop-helix,
hydrolase; 1.95A {Archaeoglobus fulgidus} SCOP: c.55.3.1
PDB: 1i3a_A 3p83_D*
Length = 225
Score = 27.6 bits (62), Expect = 5.0
Identities = 12/41 (29%), Positives = 18/41 (43%), Gaps = 5/41 (12%)
Query: 167 PEVPPLWL--LPKLIVDGLVIAII---AFSINISMASILAK 202
P+V P L + I V+A ++ ASI+AK
Sbjct: 123 PDVIPERLSRELEEITGLRVVAEHKADEKYPLVAAASIIAK 163
>1io2_A Ribonuclease HII; endonuclease, hydrolase; 2.00A {Thermococcus
kodakarensis} SCOP: c.55.3.1 PDB: 2dfh_A 2dff_A 2dfe_A
1x1p_A
Length = 213
Score = 27.2 bits (61), Expect = 6.6
Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 4/44 (9%)
Query: 163 GFPVPEV-PPLWLLPKLIVDGLVIAII---AFSINISMASILAK 202
V E L +L + V+A +S ASILAK
Sbjct: 106 AADVDEERFARELGERLNFEAEVVAKHKADDIFPVVSAASILAK 149
>3kio_A Ribonuclease H2 subunit A; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_A 3puf_A 3p56_A
Length = 301
Score = 27.5 bits (61), Expect = 6.7
Identities = 9/39 (23%), Positives = 12/39 (30%), Gaps = 6/39 (15%)
Query: 170 PPLWLLPKLIVDGLVIAIIAF------SINISMASILAK 202
P +L I + +S ASI AK
Sbjct: 146 MPETYQARLQQHFPGIEVTVKAKADSLFPVVSAASIFAK 184
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
0.324 0.139 0.449
Gapped
Lambda K H
0.267 0.0792 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,145,993
Number of extensions: 292012
Number of successful extensions: 624
Number of sequences better than 10.0: 1
Number of HSP's gapped: 622
Number of HSP's successfully gapped: 16
Length of query: 335
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 241
Effective length of database: 4,077,219
Effective search space: 982609779
Effective search space used: 982609779
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 57 (25.6 bits)