RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 032838
(132 letters)
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY
crystallography, putative translation factor, PSI,
protein structure initiative; 1.40A {Escherichia coli}
SCOP: d.115.1.1 PDB: 1kk9_A
Length = 206
Score = 53.3 bits (129), Expect = 7e-10
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 81 YVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
+ P + VE++++G V V PTD+ YA+ C ++ +A+ER+ R
Sbjct: 4 FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICR 55
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural
genomics; NMR {Methanothermobacterthermautotrophicus}
SCOP: d.115.1.1
Length = 208
Score = 38.3 bits (90), Expect = 2e-04
Identities = 10/50 (20%), Positives = 22/50 (44%)
Query: 80 MYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIER 129
+ + LE + +++ G + + PTDT+Y + + A+ R
Sbjct: 2 LIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRR 51
>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 = 36.2 bits (83), Expect = 0.002
Identities = 22/111 (19%), Positives = 29/111 (26%), Gaps = 43/111 (38%)
Query: 52 YRILAMTVKRSPKRLKYSAPQFTKEGGL--------MYVEADPSGADSWKLEPVVELLKE 103
+ IL + V +P L F E G M E G K E + + + E
Sbjct: 1659 FSILDI-VINNPVNL---TIHFGGEKGKRIRENYSAMIFETIVDG--KLKTEKIFKEINE 1712
Query: 104 GAVGVI---PTDTL--------------YAIVCDLKS------------HS 125
+ L A DLKS HS
Sbjct: 1713 HSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHS 1763
Score = 30.0 bits (67), Expect = 0.24
Identities = 24/122 (19%), Positives = 36/122 (29%), Gaps = 45/122 (36%)
Query: 22 HSHFLEAAT--------RRAAPFPG----------------RVSSVSPNPKPSRYRILAM 57
HSH L A+ + F RV S S + + +
Sbjct: 428 HSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISER------IVD 481
Query: 58 TVKRSP----KRLKYSAPQFTKEGGLMYVEADPSGADSWKLEPVVELLKEGA-VGVIPTD 112
+ R P ++ A ++ P GA L + K+G V VI
Sbjct: 482 CIIRLPVKWETTTQFKATHI--------LDFGPGGASG--LGVLTHRNKDGTGVRVIVAG 531
Query: 113 TL 114
TL
Sbjct: 532 TL 533
Score = 25.8 bits (56), Expect = 5.9
Identities = 17/135 (12%), Positives = 37/135 (27%), Gaps = 30/135 (22%)
Query: 10 DTAFLLRSHSHSHSHFLEAATRRAAP---------FPGRVSSVSPNPKPSRYRILAMTVK 60
+ +L + H+ + L R+ + P K S + V
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFR-AVG 150
Query: 61 RSPKRLKYSAPQFTKEGG----------L--MYVEADPSGADSWKLEPVVELLKEGAVGV 108
+L + F GG L +Y + ++ E L E
Sbjct: 151 EGNAQL-VA--IF---GGQGNTDDYFEELRDLY-QTYHVLVGDL-IKFSAETLSELIRTT 202
Query: 109 IPTDTLYAIVCDLKS 123
+ + ++ ++
Sbjct: 203 LDAEKVFTQGLNILE 217
>3ttc_A HYPF, transcriptional regulatory protein; Zn finger, nucleotide
binding, hydrogenase maturation factor transferase; HET:
ADP; 1.86A {Escherichia coli} PDB: 3tsp_A* 3tsu_A*
3ttf_A* 3ttd_A 3tsq_A
Length = 657
Score = 33.2 bits (76), Expect = 0.019
Identities = 12/54 (22%), Positives = 22/54 (40%)
Query: 79 LMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
L +V L+ + LK G + I + + CD ++ +A+ LR
Sbjct: 99 LEWVSHGEHAEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRA 152
>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5,
PSI, protein structure initiative, midwest center for
structural genomics; 2.00A {Escherichia coli} SCOP:
d.115.1.1
Length = 188
Score = 30.9 bits (71), Expect = 0.062
Identities = 11/41 (26%), Positives = 21/41 (51%)
Query: 90 DSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERL 130
+ +++L E V PT+ ++ + CD S +A+ RL
Sbjct: 6 QRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRL 46
>3vth_A Hydrogenase maturation factor; carbamoyltransfer, maturation of
[NIFE]-hydrogenase, carbamoylphosphate, iron, HYPE; HET:
APC AP2; 2.00A {Thermoanaerobacter tengcongensis} PDB:
3vti_A
Length = 761
Score = 30.9 bits (70), Expect = 0.10
Identities = 11/48 (22%), Positives = 19/48 (39%), Gaps = 1/48 (2%)
Query: 85 DPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRR 132
D ++ V + LKEG + I + + + A+ LRR
Sbjct: 197 GEGCFDDE-IKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRR 243
>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 = 27.6 bits (60), Expect = 0.96
Identities = 7/41 (17%), Positives = 16/41 (39%), Gaps = 13/41 (31%)
Query: 60 KRSPKRLKYSAPQFTKEGGL-MYVEADPSGADSWKLEPVVE 99
K++ K+L + L +Y A + ++ +E
Sbjct: 19 KQALKKL---------QASLKLYA---DDSAPALAIKATME 47
Score = 26.8 bits (58), Expect = 1.9
Identities = 7/18 (38%), Positives = 9/18 (50%), Gaps = 4/18 (22%)
Query: 58 TVKRSPKRLK-Y---SAP 71
+K+ LK Y SAP
Sbjct: 21 ALKKLQASLKLYADDSAP 38
>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5
domain, structural genomics, NPPSFA; HET: AMP; 1.80A
{Sulfolobus tokodaii} PDB: 3aje_A* 4e1b_A*
Length = 352
Score = 26.4 bits (59), Expect = 3.1
Identities = 8/31 (25%), Positives = 17/31 (54%)
Query: 85 DPSGADSWKLEPVVELLKEGAVGVIPTDTLY 115
DP + K++ ++++ G PT+T+Y
Sbjct: 8 DPLNPEIDKIKIAADVIRNGGTVAFPTETVY 38
>3s99_A Basic membrane lipoprotein; ssgcid, structural genomics, SEA
structural genomics center for infectious disease,
adenine; HET: ADE; 2.05A {Brucella melitensis biovar
abortus}
Length = 356
Score = 26.3 bits (58), Expect = 3.4
Identities = 7/26 (26%), Positives = 13/26 (50%)
Query: 89 ADSWKLEPVVELLKEGAVGVIPTDTL 114
+WK + + +KEG V + P +
Sbjct: 268 DGTWKSQNIWWGMKEGLVKMAPFTNM 293
>3nvz_C Xanthine dehydrogenase/oxidase; hydroxylase, homodimer, xanthine
oxidase, indole-3-aldehyde, oxidoreductase; HET: FAD MTE
I3A; 1.60A {Bos taurus} PDB: 3ns1_C* 3etr_C* 3nvv_C*
3nvw_C* 3nrz_C* 3nvy_C* 3eub_C* 3b9j_C* 1fiq_C* 3rca_C*
3sr6_C*
Length = 755
Score = 26.1 bits (58), Expect = 4.5
Identities = 10/36 (27%), Positives = 16/36 (44%), Gaps = 1/36 (2%)
Query: 50 SRYRILAMTVKRSPKRLKYSAPQFTKEGGLMYVEAD 85
R + +T R P +Y F K G ++ +E D
Sbjct: 258 DRNEDMLITGGRHPFLARYKV-GFMKTGTIVALEVD 292
>1vgj_A Hypothetical protein PH0099; alpha+beta, LIGT-like, structural
genomics, ligase; 1.94A {Pyrococcus horikoshii} PDB:
1vdx_A 2fyh_A
Length = 184
Score = 24.8 bits (54), Expect = 8.6
Identities = 5/38 (13%), Positives = 14/38 (36%)
Query: 26 LEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSP 63
L+ + +V + P P+ R++ ++
Sbjct: 61 LKKIAEKYKKHEVKVKGIGVFPNPNYIRVIWAGIENDE 98
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A
{Streptococcus mutans}
Length = 295
Score = 25.0 bits (54), Expect = 8.8
Identities = 11/40 (27%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 90 DSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIER 129
+ E + EG V V PT Y I+ +ER
Sbjct: 43 GNLSQEGFEIVKGEGGVIVCPTKVGYIIMTS--DKKGLER 80
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
0.318 0.132 0.393
Gapped
Lambda K H
0.267 0.0760 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,088,052
Number of extensions: 116400
Number of successful extensions: 246
Number of sequences better than 10.0: 1
Number of HSP's gapped: 244
Number of HSP's successfully gapped: 23
Length of query: 132
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 49
Effective length of database: 4,384,350
Effective search space: 214833150
Effective search space used: 214833150
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (23.7 bits)