RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11384
(137 letters)
>3u5c_A 40S ribosomal protein S0-A; translation, ribosome, ribosomal,
ribosomal R ribosomal protein, eukaryotic ribosome,
RNA-protein C; 3.00A {Saccharomyces cerevisiae} PDB:
3izb_A 3o30_A 3o2z_A 3u5g_A 3jyv_B* 1s1h_B
Length = 252
Score = 151 bits (382), Expect = 1e-48
Identities = 7/104 (6%), Positives = 18/104 (17%)
Query: 1 MTCKRRNGGRSKHGRGHVNPVRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDITEASYYQ 60
M+ + + + + + V V E
Sbjct: 1 MSLPATFDLTPEDAQLLLAANTHLGARNVQVHQEPYVFNARPDGVHVINVGKTWEKLVLA 60
Query: 61 SYQLPKLYAKLHYCVSCAIHSKVVRNRSKSDRRIRTPPQRNFPR 104
+ + + + + TP F
Sbjct: 61 ARIIAAIPNPEDVVAISSRTFGQRAVLKFAAHTGATPIAGRFTP 104
>2xzm_5 Ribosomal protein S26E containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_5
Length = 119
Score = 144 bits (363), Expect = 7e-46
Identities = 55/106 (51%), Positives = 72/106 (67%), Gaps = 2/106 (1%)
Query: 1 MTCKRRNGGRSKHGRGHVNPVRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDITEASYYQ 60
M KRRN GRS+ RGH V CTNC R V KDKA+K++ +R++V+ ++ RDI + ++
Sbjct: 1 MPVKRRNAGRSQKNRGHTRTVPCTNCGRQVAKDKAVKRYTVRDMVDPSSKRDIQQKLAFE 60
Query: 61 S--YQLPKLYAKLHYCVSCAIHSKVVRNRSKSDRRIRTPPQRNFPR 104
+ +PKLY KL YC+SCAIHS+VVR R DRRIR PP RN
Sbjct: 61 NEKQGIPKLYVKLQYCISCAIHSRVVRVRCAEDRRIRRPPIRNRKP 106
>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 = 33.5 bits (76), Expect = 0.015
Identities = 12/68 (17%), Positives = 20/68 (29%), Gaps = 17/68 (25%)
Query: 56 ASYYQSYQLPKLYAKLHYCVSCAIHSKVVRNRSKSDRRIRTPPQRNFPRSVSLT---EGT 112
S S L + HY V+ + + P T +G
Sbjct: 232 LSIPISCPLIGVIQLAHYVVTA--------------KLLGFTPGELRSYLKGATGHSQGL 277
Query: 113 VTAMVLSS 120
VTA+ ++
Sbjct: 278 VTAVAIAE 285
Score = 31.6 bits (71), Expect = 0.073
Identities = 20/111 (18%), Positives = 37/111 (33%), Gaps = 38/111 (34%)
Query: 40 VIRNIVEAAAVR--DITEASYYQSYQLPKLYAKLHYCVSCAIHSKVVRNRSKSDRRIRTP 97
+ +V A A+ D + S++ S + K L + R
Sbjct: 273 HSQGLVTAVAIAETD-SWESFFVSVR--KAITVLFFIGV----------RC--------- 310
Query: 98 PQRNFPR----------SVSLTEGTVTAM-VLSSQNQREKEDRIGE--SHL 135
+P S+ EG + M +S+ Q + +D + + SHL
Sbjct: 311 -YEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHL 360
Score = 27.3 bits (60), Expect = 2.3
Identities = 14/52 (26%), Positives = 20/52 (38%), Gaps = 10/52 (19%)
Query: 3 CKRRNGGRSKHGRGHVNPVRCTNCARCVPKDKAIKKFVIR------NIVEAA 48
R GRS +G +NP R A +A++ V R +VE
Sbjct: 1797 VPRDELGRSNYGMIAINPGRV--AASF--SQEALQYVVERVGKRTGWLVEIV 1844
>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 = 1.1
Identities = 13/55 (23%), Positives = 18/55 (32%), Gaps = 33/55 (60%)
Query: 34 KAIKKFVIRNIVEAAAVRDITEASYYQSYQLPKLYA-----KLHYCVSCAIHSKV 83
+A+KK +AS L KLYA L AI + +
Sbjct: 20 QALKKL---------------QAS------L-KLYADDSAPAL------AIKATM 46
>2c42_A Pyruvate-ferredoxin oxidoreductase; 4Fe-4S, iron, iron-sulfur,
iron-sulfur cluster, pyruvate catabolism, TPP-dependent
enzyme; HET: TPP; 1.78A {Desulfovibrio africanus} SCOP:
c.36.1.8 c.36.1.12 c.48.1.3 c.64.1.1 d.58.1.5 PDB:
1b0p_A* 1kek_A* 2c3o_A* 2c3p_A* 2c3u_A* 2c3y_A* 2c3m_A*
2pda_A* 2uza_A*
Length = 1231
Score = 27.5 bits (61), Expect = 1.9
Identities = 8/24 (33%), Positives = 12/24 (50%), Gaps = 4/24 (16%)
Query: 18 VNPVRCTNCARCV----PKDKAIK 37
+N + C C C PK+KA+
Sbjct: 739 INTLDCMGCGNCADICPPKEKALV 762
>3hsr_A HTH-type transcriptional regulator SARZ; helix-turn-helix, cysteine
disulfide, MARR-family transcript regulator,
DNA-binding; 1.90A {Staphylococcus aureus subsp} PDB:
3hse_A 3hrm_A
Length = 140
Score = 25.7 bits (57), Expect = 4.2
Identities = 10/28 (35%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 83 VVRNRSKSDRRIRTPPQRNFPRSVSLTE 110
VVR R + D R +SLTE
Sbjct: 80 VVRTREEKDERNLQ---------ISLTE 98
>2pex_A Transcriptional regulator OHRR; transcription regulator; 1.90A
{Xanthomonas campestris} PDB: 2pfb_A
Length = 153
Score = 25.8 bits (57), Expect = 4.7
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 83 VVRNRSKSDRRIRTPPQRNFPRSVSLTE 110
V R R+ SD R ++LTE
Sbjct: 91 VTRTRAASDERQVI---------IALTE 109
>1uwc_A Feruloyl esterase A; hydrolase, serine esterase, xylan
degradation; HET: NAG FER; 1.08A {Aspergillus niger}
SCOP: c.69.1.17 PDB: 1uza_A* 2hl6_A* 2ix9_A* 1usw_A*
2bjh_A*
Length = 261
Score = 26.0 bits (57), Expect = 4.9
Identities = 8/46 (17%), Positives = 18/46 (39%), Gaps = 1/46 (2%)
Query: 48 AAVRDITEASYYQSYQLPKLYAKLHYCVSCAIHSKVVRNRSKSDRR 93
A+ + I+E Y ++ Y C I S +++ + +
Sbjct: 1 ASTQGISE-DLYNRLVEMATISQAAYADLCNIPSTIIKGEKIYNAQ 45
>1z91_A Organic hydroperoxide resistance transcriptional; OHRR, MARR
family, bacterial transcription factor, DNA bindi
protein; 2.50A {Bacillus subtilis} SCOP: a.4.5.28 PDB:
1z9c_A*
Length = 147
Score = 25.0 bits (55), Expect = 6.8
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 83 VVRNRSKSDRRIRTPPQRNFPRSVSLTE 110
+ R RS+ D R +SLTE
Sbjct: 84 ITRKRSEEDERSVL---------ISLTE 102
>3oop_A LIN2960 protein; protein structure initiative, PSI-2, structural
genomics, MI center for structural genomics, MCSG,
unknown function; 1.78A {Listeria innocua}
Length = 143
Score = 24.9 bits (55), Expect = 7.2
Identities = 10/28 (35%), Positives = 13/28 (46%), Gaps = 9/28 (32%)
Query: 83 VVRNRSKSDRRIRTPPQRNFPRSVSLTE 110
+VR S DRRI +SLT+
Sbjct: 81 IVREISTEDRRISL---------LSLTD 99
>2bv6_A MGRA, HTH-type transcriptional regulator MGRA; multidrug resistance
regulator, virulence determinant, transcriptional
factors; 2.8A {Staphylococcus aureus} SCOP: a.4.5.28
Length = 142
Score = 24.9 bits (55), Expect = 8.2
Identities = 7/28 (25%), Positives = 12/28 (42%), Gaps = 9/28 (32%)
Query: 83 VVRNRSKSDRRIRTPPQRNFPRSVSLTE 110
+ R RS+ D+R + LT+
Sbjct: 81 IKRERSEVDQREVF---------IHLTD 99
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
0.321 0.132 0.393
Gapped
Lambda K H
0.267 0.0551 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,000,252
Number of extensions: 102384
Number of successful extensions: 294
Number of sequences better than 10.0: 1
Number of HSP's gapped: 293
Number of HSP's successfully gapped: 35
Length of query: 137
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 53
Effective length of database: 4,356,429
Effective search space: 230890737
Effective search space used: 230890737
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 (21.9 bits)
S2: 52 (24.2 bits)