RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2389
(172 letters)
>1fft_C Ubiquinol oxidase; electron transport, cytochrome oxidase, membrane
protein, oxidoreductase; HET: HEM HEO; 3.50A
{Escherichia coli} SCOP: f.25.1.1
Length = 204
Score = 197 bits (503), Expect = 3e-65
Identities = 86/171 (50%), Positives = 116/171 (67%)
Query: 1 MSDCLIFSSLFAIYAVLGHNYAEGPTAIQIFKLPSVALNTIILLLSSLSCGFAIIQAQKK 60
MSDC++FS LFA YAVL + A GPT IF+LP V + T +LL SS++ G A I K
Sbjct: 34 MSDCILFSILFATYAVLVNGTAGGPTGKDIFELPFVLVETFLLLFSSITYGMAAIAMYKN 93
Query: 61 YVNGVIFWLSITTLLGFFFVILELNEFIELINRNFGPWRSAFLSSFFVLVGMHGLHIIFG 120
+ VI WL++T L G F+ +E+ EF LI GP RS FLS+FF LVG HGLH+ G
Sbjct: 94 NKSQVISWLALTWLFGAGFIGMEIYEFHHLIVNGMGPDRSGFLSAFFALVGTHGLHVTSG 153
Query: 121 IIWLITLILQIKKYNLILENQRRIICLSMFWHFLDIIWIGIFTFIYLIGTL 171
+IW+ L++QI + L N+ RI+CLS+FWHFLD++WI +FT +YL+G +
Sbjct: 154 LIWMAVLMVQIARRGLTSTNRTRIMCLSLFWHFLDVVWICVFTVVYLMGAM 204
>2yev_A Cytochrome C oxidase polypeptide I+III; electron transport; HET:
FME 5PL HAS 4AG 7E8 HEC 7E9; 2.36A {Thermus
thermophilus}
Length = 791
Score = 82.9 bits (205), Expect = 4e-19
Identities = 50/167 (29%), Positives = 84/167 (50%), Gaps = 2/167 (1%)
Query: 1 MSDCLIFSSLFAIYAVLGHNYAEGPTAIQIFKLPSVALNTIILLLSSLSCGFAIIQAQKK 60
+S+ +F+ L A Y L + A P + L LNT +L+ SS + FA ++
Sbjct: 626 VSEVGLFAILIAGYLYLRLSGAATPPE-ERPALWLALLNTFLLVSSSFTVHFAHHDLRRG 684
Query: 61 YVNGVIFWLSITTLLGFFFVILELNEFIELINRNFGPWRSAFLSSFFVLVGMHGLHIIFG 120
N F L +T +LG F +++ EF + + + + ++FF +VG+HGLH++ G
Sbjct: 685 RFNPFRFGLLVTIILGVLFFLVQSWEFYQFY-HHSSWQENLWTAAFFTIVGLHGLHVVIG 743
Query: 121 IIWLITLILQIKKYNLILENQRRIICLSMFWHFLDIIWIGIFTFIYL 167
LI LQ + + L N + SM+WH +D +W+ I T Y+
Sbjct: 744 GFGLILAYLQALRGKITLHNHGTLEAASMYWHLVDAVWLVIVTIFYV 790
>1v54_C Cytochrome C oxidase polypeptide III; oxidoreductase; HET: FME TPO
HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: f.25.1.1 PDB: 1v55_C* 2dyr_C* 2eij_C* 2eik_C*
2eil_C* 2eim_C* 2ein_C* 2y69_C* 2ybb_N* 2zxw_C* 3abk_C*
3abl_C* 3abm_C* 3ag1_C* 3ag2_C* 3ag3_C* 3ag4_C* 3asn_C*
3aso_C* 2occ_C* ...
Length = 261
Score = 61.8 bits (151), Expect = 3e-12
Identities = 40/132 (30%), Positives = 70/132 (53%), Gaps = 9/132 (6%)
Query: 38 LNTIILLLSSLSCGFA---IIQAQKKYVNGVIFWLSITTLLGFFFVILELNEFIELINRN 94
LNT +LL S +S +A +++ +K ++ L IT LG +F +L+ +E+ E
Sbjct: 132 LNTSVLLASGVSITWAHHSLMEGDRK---HMLQALFITITLGVYFTLLQASEYYE---AP 185
Query: 95 FGPWRSAFLSSFFVLVGMHGLHIIFGIIWLITLILQIKKYNLILENQRRIICLSMFWHFL 154
F + S+FFV G HGLH+I G +LI + K++ + + +WHF+
Sbjct: 186 FTISDGVYGSTFFVATGFHGLHVIIGSTFLIVCFFRQLKFHFTSNHHFGFEAAAWYWHFV 245
Query: 155 DIIWIGIFTFIY 166
D++W+ ++ IY
Sbjct: 246 DVVWLFLYVSIY 257
>1qle_C Cytochrome C oxidase polypeptide III; oxidoreductase/immune system,
complex (oxidoreductase/antibody), electron transport;
HET: HEA PC1; 3.0A {Paracoccus denitrificans} SCOP:
f.25.1.1
Length = 273
Score = 57.6 bits (140), Expect = 9e-11
Identities = 35/132 (26%), Positives = 66/132 (50%), Gaps = 8/132 (6%)
Query: 38 LNTIILLLSSLSCGFA---IIQAQKKYVNGVIFWLSITTLLGFFFVILELNEFIELINRN 94
+NT+ILLLS ++ +A + + I L + +LG F L+ E+
Sbjct: 143 INTLILLLSGVAVTWAHHAFVLEGDR--KTTINGLIVAVILGVCFTGLQAYEYSHA---A 197
Query: 95 FGPWRSAFLSSFFVLVGMHGLHIIFGIIWLITLILQIKKYNLILENQRRIICLSMFWHFL 154
FG + + +F++ G HG H+I G I+L ++++ K + + + +WHF+
Sbjct: 198 FGLADTVYAGAFYMATGFHGAHVIIGTIFLFVCLIRLLKGQMTQKQHVGFEAAAWYWHFV 257
Query: 155 DIIWIGIFTFIY 166
D++W+ +F IY
Sbjct: 258 DVVWLFLFVVIY 269
>1m56_C Cytochrome C oxidase; membrane protein, oxidoreductase; HET: HEA
PEH; 2.30A {Rhodobacter sphaeroides} SCOP: f.25.1.1 PDB:
1m57_C*
Length = 266
Score = 56.8 bits (138), Expect = 2e-10
Identities = 34/132 (25%), Positives = 68/132 (51%), Gaps = 8/132 (6%)
Query: 38 LNTIILLLSSLSCGFA---IIQAQKKYVNGVIFWLSITTLLGFFFVILELNEFIELINRN 94
+NT+ILL S + +A ++ + V + L++ LG F + + E+
Sbjct: 136 INTLILLCSGCAATWAHHALVHENNR--RDVAWGLALAIALGALFTVFQAYEYSHA---A 190
Query: 95 FGPWRSAFLSSFFVLVGMHGLHIIFGIIWLITLILQIKKYNLILENQRRIICLSMFWHFL 154
FG + + ++FF+ G HG H+I G I+L+ ++++++ + E +WHF+
Sbjct: 191 FGFAGNIYGANFFMATGFHGFHVIVGTIFLLVCLIRVQRGHFTPEKHVGFEAAIWYWHFV 250
Query: 155 DIIWIGIFTFIY 166
D++W+ +F IY
Sbjct: 251 DVVWLFLFASIY 262
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.5 bits (78), Expect = 0.006
Identities = 8/36 (22%), Positives = 15/36 (41%), Gaps = 18/36 (50%)
Query: 8 SSLFAIYAVLGHNYAEGP-TAIQIFKLPSVALN-TI 41
+SL +YA +A P++A+ T+
Sbjct: 27 ASL-KLYA---------DDSA------PALAIKATM 46
>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 = 31.4 bits (70), Expect = 0.16
Identities = 27/148 (18%), Positives = 45/148 (30%), Gaps = 42/148 (28%)
Query: 9 SLFAIYAVLGHNYAEGPTAIQIFKLPSVALNTIILLLSSLSCGFAIIQAQKK-YVNGVIF 67
SL Y L + LP L T LS II + +
Sbjct: 305 SLLLKY--LD---------CRPQDLPREVLTTNPRRLS-------IIAESIRDGLATWDN 346
Query: 68 WLSITTLLGFFFVILELNEFIELINRNFGP--WRSAFLSSFFVLVGMHGLHI---IFGII 122
W + +L IE P +R F V HI + +I
Sbjct: 347 WKHVN--------CDKLTTIIESSLNVLEPAEYRKMFD-RLSVF--PPSAHIPTILLSLI 395
Query: 123 WL------ITLIL-QIKKYNLILENQRR 143
W + +++ ++ KY+L+ + +
Sbjct: 396 WFDVIKSDVMVVVNKLHKYSLVEKQPKE 423
Score = 28.7 bits (63), Expect = 1.3
Identities = 19/89 (21%), Positives = 32/89 (35%), Gaps = 19/89 (21%)
Query: 58 QKKYVNGVIFWLSITTLLGFFFVILELNEFIELINRNFGPWRSAFLSSFFVLVGMHGLHI 117
Q K IFWL++ V+ L + + I+ N+ H +I
Sbjct: 177 QCKMDFK-IFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSD------------HSSNI 223
Query: 118 IFGIIWL---ITLILQIKKYN---LILEN 140
I + + +L+ K Y L+L N
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLLN 252
Score = 27.5 bits (60), Expect = 2.8
Identities = 7/48 (14%), Positives = 17/48 (35%), Gaps = 11/48 (22%)
Query: 104 SSFFVLVGMHGLHIIFGIIWLITLILQIKKYNLILENQRRIICLSMFW 151
+ ++ G+ G G W+ + K ++ + +FW
Sbjct: 150 AKNVLIDGVLG----SGKTWVALDVCLSYKVQCKMDFK-------IFW 186
>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 = 26.2 bits (57), Expect = 7.8
Identities = 10/60 (16%), Positives = 24/60 (40%), Gaps = 14/60 (23%)
Query: 69 LSITTLLGFFFVILELNEFIELINRNFGPWRSAFLSSF-----FVLVG----MHGLHIIF 119
LSI+ L ++ +++ N + + +S V+ G ++GL++
Sbjct: 339 LSISNLT-----QEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTL 393
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
0.336 0.149 0.476
Gapped
Lambda K H
0.267 0.0513 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,646,893
Number of extensions: 146588
Number of successful extensions: 384
Number of sequences better than 10.0: 1
Number of HSP's gapped: 369
Number of HSP's successfully gapped: 38
Length of query: 172
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 85
Effective length of database: 4,272,666
Effective search space: 363176610
Effective search space used: 363176610
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 39 (21.6 bits)
S2: 54 (25.1 bits)