RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2984
(228 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 = 32/199 (16%), Positives = 67/199 (33%), Gaps = 59/199 (29%)
Query: 8 KRSDEYFRTVFEEKG--LADIVK-------LHM-AQASQEAKKELQEQLEEQISEG-ASI 56
R+D +F+ + G + DIV +H + + ++ + E I +G
Sbjct: 1647 NRADNHFKDTY---GFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKT 1703
Query: 57 KDIVADIREIANKHCIPDQELIVLNMDVVKATE----RLLKLSVSILHI----HLVPIPL 108
+ I +I E + + ++ ++ AT+ L + + L+P
Sbjct: 1704 EKIFKEINEHSTSYTFRSEK------GLLSATQFTQPALTLMEKAAFEDLKSKGLIPADA 1757
Query: 109 LLI--SVLCIISCRHLYKPLVEQG-YSRLTASSLVFFISAFMHEYLV---------SVPL 156
S+ G Y+ L + + V I + + +V +VP
Sbjct: 1758 TFAGHSL----------------GEYAALASLADVMSIESLVE--VVFYRGMTMQVAVP- 1798
Query: 157 RTYKIWAFMGMMGQIPLSM 175
R + GM+ P +
Sbjct: 1799 RDELGRSNYGMIAINPGRV 1817
Score = 26.9 bits (59), Expect = 6.6
Identities = 21/145 (14%), Positives = 41/145 (28%), Gaps = 56/145 (38%)
Query: 109 LLISVLCIISCRHLYKPLVEQGYSRLTASSLVFFISAFM-----HEYLVSVP-------- 155
L+ L +S L +P + ++ L F + ++ H +
Sbjct: 60 LVGKFLGYVS--SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLV 117
Query: 156 -----LRTY----------------------------KIWAFMGMMGQ----IPLSMLSR 178
++ Y ++ A G GQ L R
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFG--GQGNTDDYFEEL-R 174
Query: 179 HVEKKYGPRWGNIIVWSSLILGQPL 203
+ + Y G++I +S+ L L
Sbjct: 175 DLYQTYHVLVGDLIKFSAETL-SEL 198
>3d3m_A Eukaryotic translation initiation factor 4 gamma 2; heat repeat
domain, structural genomics, PSI, protein structure
initiative; 1.90A {Homo sapiens}
Length = 168
Score = 33.9 bits (77), Expect = 0.017
Identities = 9/46 (19%), Positives = 21/46 (45%)
Query: 40 KELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLNMDVV 85
+L+++L +QI S + I I++ + D+ + + M
Sbjct: 2 LKLEKELLKQIKLDPSPQTIYKWIKDNISPKLHVDKGFVNILMTSF 47
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.4 bits (73), Expect = 0.064
Identities = 12/46 (26%), Positives = 25/46 (54%), Gaps = 6/46 (13%)
Query: 31 MAQASQ-----EAKKELQEQLEEQISE-GASIKDIVADIREIANKH 70
+AQA + E+ ++ +E+ +++ E A+ K + + RE A K
Sbjct: 74 IAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKD 119
Score = 27.0 bits (59), Expect = 3.7
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 18/74 (24%)
Query: 12 EYFRTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISE-----GASIKDIVADIREI 66
E R +E AS+ ++E +E+ ++ + E ++ + R
Sbjct: 92 EEQRKRLQELD----------AASKVMEQEWREKAKKDLEEWNQRQSEQVEKNKINNRI- 140
Query: 67 ANKHCI--PDQELI 78
A+K PD ++I
Sbjct: 141 ADKAFYQQPDADII 154
>1b67_A Protein (histone HMFA); DNA binding protein; 1.48A
{Methanothermus fervidus} SCOP: a.22.1.2 PDB: 1hta_A
1a7w_A 1b6w_A 1bfm_A
Length = 68
Score = 27.7 bits (62), Expect = 0.66
Identities = 12/57 (21%), Positives = 18/57 (31%), Gaps = 10/57 (17%)
Query: 35 SQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVLNMDVVKATERL 91
S +A+ L + LEE E I A K + D+ A +
Sbjct: 21 SDDARIALAKVLEEMGEE----------IASEAVKLAKHAGRKTIKAEDIELARKMF 67
>3f42_A Protein HP0035; helicobacter pylori unknown-function, structural
genomics, P protein structure initiative; HET: MSE;
1.78A {Helicobacter pylori}
Length = 99
Score = 27.3 bits (61), Expect = 1.6
Identities = 4/33 (12%), Positives = 14/33 (42%), Gaps = 2/33 (6%)
Query: 23 LADIVKLHMAQASQEAKKELQEQLEEQISEGAS 55
+ + + ++ +L+E+ ++ I S
Sbjct: 5 FSQLGG--LLDGMKKEFSQLEEKNKDTIHTSKS 35
>1j8b_A YBAB; hypothetical protein, structural genomics, structure
function project, S2F, unknown function; HET: MSE;
1.75A {Haemophilus influenzae RD} SCOP: d.222.1.1 PDB:
1pug_A
Length = 112
Score = 27.6 bits (62), Expect = 1.6
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 15 RTVFEEKGLADIVKLHMAQASQEAKKELQEQLEEQISEGAS 55
+F + GL ++K AQ QE +++QE++ + G S
Sbjct: 2 SHMFGKGGLGGLMK--QAQQMQEKMQKMQEEIAQLEVTGES 40
>1wdk_A Fatty oxidation complex alpha subunit; alpha2BETA2 heterotetrameric
complex, lyase, oxidoreductase/transferase complex,
lyase; HET: ACO NAD N8E; 2.50A {Pseudomonas fragi} SCOP:
a.100.1.3 a.100.1.3 c.2.1.6 c.14.1.3 PDB: 1wdl_A*
1wdm_A* 2d3t_A*
Length = 715
Score = 28.7 bits (65), Expect = 1.9
Identities = 18/80 (22%), Positives = 36/80 (45%), Gaps = 15/80 (18%)
Query: 35 SQEAKKELQEQLEEQISEGASIKDIV-----------ADIREIANKHCIPDQELIVLNM- 82
++ EL++ ++ ++ AS+K ++ ADI E +PD ELI N+
Sbjct: 33 NRLTLNELRQAVDAIKAD-ASVKGVIVSSGKDVFIVGADITEFVENFKLPDAELIAGNLE 91
Query: 83 --DVVKATERLLKLSVSILH 100
+ E L +V+ ++
Sbjct: 92 ANKIFSDFEDLNVPTVAAIN 111
>2dgc_A Protein (GCN4); basic domain, leucine zipper, DNA binding,
eukaryotic regulatory protein, transcription/DNA
complex; HET: DNA; 2.20A {Saccharomyces cerevisiae}
SCOP: h.1.3.1 PDB: 1dgc_A* 1ld4_E 1ysa_C* 3p8m_D
Length = 63
Score = 26.3 bits (58), Expect = 2.3
Identities = 9/42 (21%), Positives = 25/42 (59%), Gaps = 4/42 (9%)
Query: 32 AQASQEAKKELQEQLEEQI----SEGASIKDIVADIREIANK 69
A+ S+ K + +QLE+++ S+ +++ VA ++++ +
Sbjct: 21 ARRSRARKLQRMKQLEDKVEELLSKNYHLENEVARLKKLVGE 62
>2wtb_A MFP2, fatty acid multifunctional protein (ATMFP2); oxidoreductase,
peroxisomes, beta-oxidation, fatty acid oxidation; 2.50A
{Arabidopsis thaliana}
Length = 725
Score = 28.4 bits (64), Expect = 2.3
Identities = 13/80 (16%), Positives = 22/80 (27%), Gaps = 15/80 (18%)
Query: 35 SQEAKKELQEQLEEQISEGASIKDIV-----------ADIREIANKHCIPDQELIVLNM- 82
S + L+ E + +K IV DI +E +
Sbjct: 32 SFDVLYNLKSNYE-EALSRNDVKAIVITGAKGRFSGGFDISGFGEMQKGNVKEPKAGYIS 90
Query: 83 --DVVKATERLLKLSVSILH 100
+ E K SV+ +
Sbjct: 91 IDIITDLLEAARKPSVAAID 110
>3ros_A NAD-dependent aldehyde dehydrogenase; nysgrc, PSI-biology,
structural genomics, NEW YORK structura genomics
research consortium; 1.88A {Lactobacillus acidophilus}
Length = 484
Score = 27.5 bits (62), Expect = 3.9
Identities = 9/23 (39%), Positives = 17/23 (73%)
Query: 34 ASQEAKKELQEQLEEQISEGASI 56
S++AK++L+ Q++E I GA +
Sbjct: 308 NSEKAKEKLEAQVKEAIDAGAKV 330
>1ybx_A Conserved hypothetical protein; ST genomics, PSI, protein
structure initiative, southeast COLL for structural
genomics, secsg; HET: MSE; 1.80A {Clostridium
thermocellum}
Length = 143
Score = 26.7 bits (59), Expect = 4.1
Identities = 10/34 (29%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 22 GLADIVKLHMAQASQEAKKELQEQLEEQISEGAS 55
+ ++VK AQ Q + +QE+L+E+ E ++
Sbjct: 42 NINNLVK--QAQKMQRDMERVQEELKEKTVEASA 73
>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 = 27.5 bits (60), Expect = 4.5
Identities = 32/210 (15%), Positives = 60/210 (28%), Gaps = 52/210 (24%)
Query: 29 LHMAQA-SQEAKKELQEQLEEQISEGASIKDIVADIREI----ANKHCIPDQELIVL--- 80
L M Q + + + + I I A++R + ++C L+VL
Sbjct: 199 LEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC-----LLVLLNV 253
Query: 81 -NMDVVKATERLLKLSVSILHIHLVPIPLLL---ISVLCIISCRHLYKPLVEQGYSRLTA 136
N A LS IL L V +S ++ LT
Sbjct: 254 QNAKAWNA----FNLSCKIL---------LTTRFKQVTDFLSAATTTHISLDHHSMTLTP 300
Query: 137 SSLVFFISAFMHEYLVSVPLRTYKIWAFMGMMGQIPL--SMLSRHVEKKYGPRWGNI--- 191
+ + ++ +P P S+++ + + W N
Sbjct: 301 DEVKSLLLKYLDCRPQDLPREVLTT---------NPRRLSIIAESI-RDGLATWDNWKHV 350
Query: 192 -------IVWSSLILGQPLCIMMYYHDFVI 214
I+ SSL + +P + +
Sbjct: 351 NCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380
>1st8_A Fructan 1-exohydrolase IIA; five fold beta propeller; HET: NDG NAG
MAN; 2.35A {Cichorium intybus} PDB: 2add_A* 2ade_A*
2aey_A* 2aez_A*
Length = 543
Score = 27.2 bits (60), Expect = 4.9
Identities = 4/11 (36%), Positives = 8/11 (72%)
Query: 184 YGPRWGNIIVW 194
Y +G++I+W
Sbjct: 42 YAATFGDVIIW 52
>3h36_A Polyribonucleotide nucleotidyltransferase; polyribonucleotide
nucleotidyltransfer structural genomics, PSI-2, protein
structure initiative; 1.80A {Streptococcus mutans}
Length = 93
Score = 25.8 bits (57), Expect = 5.4
Identities = 9/36 (25%), Positives = 19/36 (52%)
Query: 34 ASQEAKKELQEQLEEQISEGASIKDIVADIREIANK 69
A++ K+ + + EE+ +E I+ D+ EI +
Sbjct: 40 ATEAVKEHVTAEYEERYAEHEEHDRIMRDVAEILEQ 75
>3etf_A Putative succinate-semialdehyde dehydrogenase; center for ST
genomics of infectious diseases, oxidoreductase, csgid;
1.85A {Salmonella typhimurium} PDB: 3efv_A
Length = 462
Score = 27.1 bits (61), Expect = 6.0
Identities = 7/23 (30%), Positives = 15/23 (65%)
Query: 34 ASQEAKKELQEQLEEQISEGASI 56
A + + EL +Q++ ++EGA +
Sbjct: 311 ARFDLRDELHQQVQASVAEGARL 333
>3erp_A Putative oxidoreductase; funded by the national institute of
allergy and infectious D of NIH contract number
HHSN272200700058C; 1.55A {Salmonella enterica subsp}
Length = 353
Score = 26.4 bits (59), Expect = 7.4
Identities = 8/32 (25%), Positives = 10/32 (31%), Gaps = 4/32 (12%)
Query: 170 QIPLSMLSRHVEKKYGPRWGN----IIVWSSL 197
Q S+ R VE I +S L
Sbjct: 214 QPKYSLFERWVEDGLLALLQEKGVGSIAFSPL 245
>1ku5_A HPHA, archaeal histon; histone fold, DNA binding protein; 2.30A
{Pyrococcus horikoshii} SCOP: a.22.1.2
Length = 70
Score = 24.6 bits (54), Expect = 7.7
Identities = 10/21 (47%), Positives = 12/21 (57%)
Query: 35 SQEAKKELQEQLEEQISEGAS 55
S++A K L E LEE E A
Sbjct: 25 SEQAAKVLAEYLEEYAIEIAK 45
>1z6o_M Ferritin heavy chain; metal binding protein, iron storage; 1.91A
{Trichoplusia NI} SCOP: a.25.1.1
Length = 191
Score = 26.2 bits (58), Expect = 8.1
Identities = 11/47 (23%), Positives = 23/47 (48%), Gaps = 7/47 (14%)
Query: 43 QEQLEEQISEGASIKDIVADIREIANKH-----CIPDQELIVLNMDV 84
+ LEEQ + + ++++ ++H I D++L L +DV
Sbjct: 147 GDFLEEQYKGQRDLAGKASTLKKLMDRHEALGEFIFDKKL--LGIDV 191
>3oj5_A Ferritin family protein; ferroxidase, cytosol, oxidoreductase;
2.85A {Mycobacterium tuberculosis} PDB: 3qd8_A
Length = 189
Score = 26.1 bits (58), Expect = 8.7
Identities = 8/36 (22%), Positives = 14/36 (38%)
Query: 42 LQEQLEEQISEGASIKDIVADIREIANKHCIPDQEL 77
+Q L+EQI E A + +V + +
Sbjct: 125 MQWFLQEQIEEVALMATLVRVADRAGANLFELENFV 160
>3a7p_A Autophagy protein 16; coiled-coil, coiled coil, cytoplasmic
vesicle, protein transport, transport, vacuole; 2.80A
{Saccharomyces cerevisiae}
Length = 152
Score = 26.0 bits (56), Expect = 9.1
Identities = 9/74 (12%), Positives = 23/74 (31%)
Query: 21 KGLADIVKLHMAQASQEAKKELQEQLEEQISEGASIKDIVADIREIANKHCIPDQELIVL 80
+ + + ++ L +E S+ I+ + I + LI
Sbjct: 49 QDNSGAIGGNIVSHDDALLNTLAILQKELKSKEQEIRRLKEVIALKNKNTERLNAALISG 108
Query: 81 NMDVVKATERLLKL 94
++ ++L L
Sbjct: 109 TIENNVLQQKLSDL 122
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
0.325 0.139 0.415
Gapped
Lambda K H
0.267 0.0714 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,536,742
Number of extensions: 208023
Number of successful extensions: 812
Number of sequences better than 10.0: 1
Number of HSP's gapped: 805
Number of HSP's successfully gapped: 45
Length of query: 228
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 138
Effective length of database: 4,188,903
Effective search space: 578068614
Effective search space used: 578068614
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: 55 (25.0 bits)