RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 031347
(161 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 = 59.0 bits (144), Expect = 1e-11
Identities = 18/60 (30%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 81 YVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKNVEPSK 140
+ P + VE++++G V V PTD+ YA+ C ++ +A+ER+ RI+ + P
Sbjct: 4 FFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQL-PDG 62
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural
genomics; NMR {Methanothermobacterthermautotrophicus}
SCOP: d.115.1.1
Length = 208
Score = 40.6 bits (96), Expect = 5e-05
Identities = 13/56 (23%), Positives = 26/56 (46%)
Query: 80 MYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
+ + LE + +++ G + + PTDT+Y + + A+ RL R+K
Sbjct: 2 LIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKG 57
>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 = 37.4 bits (87), Expect = 0.001
Identities = 13/57 (22%), Positives = 24/57 (42%)
Query: 79 LMYVEADPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
L +V L+ + LK G + I + + CD ++ +A+ LR K+
Sbjct: 99 LEWVSHGEHAEQEAALQAAIAQLKMGNIVAIKGIGGFHLACDARNSNAVATLRARKH 155
>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 = 36.6 bits (84), 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 = 31.6 bits (71), Expect = 0.12
Identities = 20/129 (15%), Positives = 39/129 (30%), Gaps = 30/129 (23%)
Query: 22 HSHFLEAATRRAAPFPGRVSSVSPNPKPSRYRILAMTVKRSPKRLKYSAPQF-TKEGGLM 80
HSH L A+ ++ V + K ++ P + T +G
Sbjct: 428 HSHLLVPASDLINK-----------------DLVKNNVSFNAKDIQ--IPVYDTFDG--- 465
Query: 81 YVEADPSGADSWKLEPVVELLKEGAV---GVIPTDTLYAIVCDLKSHSAIERLRRIKNVE 137
+D E +V+ + V + + S + L +N +
Sbjct: 466 ---SDLRVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASGLGVLTH-RNKD 521
Query: 138 PSKVRKIAS 146
+ VR I +
Sbjct: 522 GTGVRVIVA 530
Score = 26.2 bits (57), Expect = 7.4
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
>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 = 35.5 bits (82), Expect = 0.005
Identities = 12/51 (23%), Positives = 20/51 (39%), Gaps = 1/51 (1%)
Query: 85 DPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
D ++ V + LKEG + I + + + A+ LRR K
Sbjct: 197 GEGCFDDE-IKCVAKALKEGKIVAIKGIGGFHLAVNALDDEAVATLRRRKK 246
>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 = 33.3 bits (77), Expect = 0.016
Identities = 12/46 (26%), Positives = 23/46 (50%)
Query: 90 DSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
+ +++L E V PT+ ++ + CD S +A+ RL +K
Sbjct: 6 QRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQ 51
>2fh0_A Hypothetical 16.0 kDa protein in ABF2-CHL12 intergenic region;
ensemble, YMR074CP, unknown function; NMR {Saccharomyces
cerevisiae}
Length = 81
Score = 28.2 bits (63), Expect = 0.33
Identities = 7/33 (21%), Positives = 17/33 (51%)
Query: 116 AIVCDLKSHSAIERLRRIKNVEPSKVRKIASHI 148
A + + A+ERL R+ V + + + +++
Sbjct: 9 AAIANFLEPQALERLSRVALVRRDRAQAVETYL 41
>2hvu_A PDCD5-like protein; YMR074CP, solution structure, unknown function;
NMR {Saccharomyces cerevisiae} PDB: 2jxn_A*
Length = 116
Score = 28.7 bits (64), Expect = 0.47
Identities = 6/26 (23%), Positives = 14/26 (53%)
Query: 123 SHSAIERLRRIKNVEPSKVRKIASHI 148
A+ERL R+ V + + + +++
Sbjct: 51 EPQALERLSRVALVRRDRAQAVETYL 76
>1eij_A Hypothetical protein MTH1615; beta-helix, structural genomics, PSI,
protein structure initiative; NMR
{Methanothermobacterthermautotrophicus} SCOP: a.5.6.1
Length = 80
Score = 27.4 bits (61), Expect = 0.75
Identities = 6/27 (22%), Positives = 11/27 (40%)
Query: 123 SHSAIERLRRIKNVEPSKVRKIASHIF 149
+ A RL ++ P V +I +
Sbjct: 18 TPEARSRLANLRLTRPDFVEQIELQLI 44
>2byv_E RAP guanine nucleotide exchange factor 4; EPAC2, CAMP-GEF2, CAMP,
cyclic nucleotide, regulation, auto-inhibition, CDC25
homology domain; 2.7A {Mus musculus}
Length = 999
Score = 29.0 bits (64), Expect = 0.78
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
++ +AIV L S+ A+ RL PSK +K
Sbjct: 849 NSFFAIVMGL-SNVAVSRLALTWEKLPSKFKKF 880
>3cf6_E RAP guanine nucleotide exchange factor (GEF) 4; EPAC, rapgef4,
CAMP, SP-camps, GEF, gunanine nucleotide exchange
factor, G-protein, GTP-binding, nucleotide-binding; HET:
SP1; 2.20A {Mus musculus}
Length = 694
Score = 29.0 bits (64), Expect = 0.83
Identities = 12/33 (36%), Positives = 18/33 (54%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
++ +AIV L S+ A+ RL PSK +K
Sbjct: 544 NSFFAIVMGL-SNVAVSRLALTWEKLPSKFKKF 575
>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 = 28.0 bits (61), Expect = 1.0
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 = 27.2 bits (59), Expect = 2.1
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
>2ije_S Guanine nucleotide-releasing protein; rasgrf1, CDC25 domain, RAS
guanine nucleotide releasing FACT specific nucleotide
exchange factor; 2.20A {Mus musculus}
Length = 240
Score = 28.0 bits (63), Expect = 1.2
Identities = 6/33 (18%), Positives = 15/33 (45%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
+ + I + + SAI RL++ + + +
Sbjct: 94 NAVLEITSSI-NRSAIFRLKKTWLKVSKQTKSL 125
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 28.2 bits (62), Expect = 1.2
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
+ + +V + + S + RL PS+ +KI
Sbjct: 869 NGVLEVVSAM-NSSPVYRLDHTFEQIPSRQKKI 900
>2ii0_A SOS-1, SON of sevenless homolog 1; signaling protein; 2.02A {Homo
sapiens} SCOP: a.117.1.1 PDB: 1xd2_C* 1nvv_S* 1nvu_S*
1nvw_S* 1nvx_S* 1bkd_S
Length = 490
Score = 28.1 bits (62), Expect = 1.3
Identities = 8/33 (24%), Positives = 16/33 (48%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
+ + +V + + S + RL PS+ +KI
Sbjct: 310 NGVLEVVSAM-NSSPVYRLDHTFEQIPSRQKKI 341
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A
{Streptococcus mutans}
Length = 295
Score = 28.0 bits (62), Expect = 1.4
Identities = 12/46 (26%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 90 DSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
+ E + EG V V PT Y I+ +ER K
Sbjct: 43 GNLSQEGFEIVKGEGGVIVCPTKVGYIIMTS--DKKGLERKFEAKK 86
>2cru_A Programmed cell death protein 5; three helix bundle, apoptosis, DNA
binding, structural genomics, NPPSFA; NMR {Homo sapiens}
SCOP: a.5.6.1 PDB: 2k6b_A
Length = 118
Score = 26.7 bits (59), Expect = 1.8
Identities = 7/27 (25%), Positives = 14/27 (51%)
Query: 123 SHSAIERLRRIKNVEPSKVRKIASHIF 149
SA RL + V+P K + + +++
Sbjct: 48 DQSARARLSNLALVKPEKTKAVENYLI 74
>3qxl_A RAS-specific guanine nucleotide-releasing factor; CDC25 domain
homology, guanine-nucleotide exchange factor, S GTPase
RAL subfamily; 2.24A {Homo sapiens}
Length = 271
Score = 27.4 bits (61), Expect = 1.8
Identities = 7/33 (21%), Positives = 14/33 (42%), Gaps = 1/33 (3%)
Query: 112 DTLYAIVCDLKSHSAIERLRRIKNVEPSKVRKI 144
+L ++V L + I RL + + K +
Sbjct: 121 HSLMSVVSAL-QSAPIFRLTKTWALLNRKDKTT 152
>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 = 27.2 bits (61), Expect = 2.6
Identities = 11/51 (21%), Positives = 26/51 (50%)
Query: 85 DPSGADSWKLEPVVELLKEGAVGVIPTDTLYAIVCDLKSHSAIERLRRIKN 135
DP + K++ ++++ G PT+T+Y + + +A ++ + KN
Sbjct: 8 DPLNPEIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKN 58
>3hdi_A Processing protease; CAGE structure, M16B peptidase,
metallopeptidase, peptidasome, protease, hydrolase;
2.70A {Bacillus halodurans c-125}
Length = 421
Score = 26.4 bits (59), Expect = 5.0
Identities = 6/23 (26%), Positives = 12/23 (52%)
Query: 128 ERLRRIKNVEPSKVRKIASHIFS 150
E + +I V+ V ++A + S
Sbjct: 371 EMIEQINAVQKQDVSRLAKILLS 393
>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 = 5.2
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 = 6.2
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
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
0.320 0.133 0.397
Gapped
Lambda K H
0.267 0.0565 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,526,436
Number of extensions: 144746
Number of successful extensions: 319
Number of sequences better than 10.0: 1
Number of HSP's gapped: 317
Number of HSP's successfully gapped: 34
Length of query: 161
Length of database: 6,701,793
Length adjustment: 86
Effective length of query: 75
Effective length of database: 4,300,587
Effective search space: 322544025
Effective search space used: 322544025
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 (21.8 bits)
S2: 53 (24.6 bits)