RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= 028585
(207 letters)
>3u5c_F RP14, S2, YS8, 40S ribosomal protein S5; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3izb_F 3o30_D 3o2z_D 3u5g_F 3jyv_G*
2noq_F 1s1h_G 3iz6_F
Length = 225
Score = 308 bits (791), Expect = e-108
Identities = 140/206 (67%), Positives = 169/206 (82%), Gaps = 3/206 (1%)
Query: 2 ATAVVAQSQDPSQPHYDVKLFNRWTFEDVQVNDISLSDYIGVQAAKHATYVPHTAGRYSV 61
++ Q ++KLFN+W+FE+V+V D SL DY+ V + +V HTAGRY+
Sbjct: 23 VVLATPIPEEVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQV---RQPIFVAHTAGRYAN 79
Query: 62 KRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVIN 121
KRFRKAQCPI+ERLTNSLMM+GRNNGKKL AVRI+KH ++II++LTDQNPIQV+VDA+ N
Sbjct: 80 KRFRKAQCPIIERLTNSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAITN 139
Query: 122 SGPREDATRIGSAGVVRRQAVDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELI 181
+GPRED TR+G G RRQAVD+SPLRRVNQAI L+T GARE+AFRNIKTIAE LA+ELI
Sbjct: 140 TGPREDTTRVGGGGAARRQAVDVSPLRRVNQAIALLTIGAREAAFRNIKTIAETLAEELI 199
Query: 182 NAAKGSSNSYAIKKKDEIERVAKANR 207
NAAKGSS SYAIKKKDE+ERVAK+NR
Sbjct: 200 NAAKGSSTSYAIKKKDELERVAKSNR 225
>2xzm_G Ribosomal protein S7 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_G 3j0o_T
3j0l_T
Length = 200
Score = 307 bits (788), Expect = e-108
Identities = 113/191 (59%), Positives = 151/191 (79%), Gaps = 1/191 (0%)
Query: 18 DVKLFNRWTFEDVQVNDISLSDYIGVQAAKHATYVPHTAGRYSVKRFRKAQCPIVERLTN 77
KLF +W +++V++ D +YI K +VPHTAGRY VK+FRK QCPIVERL
Sbjct: 10 QPKLFGKWNYDEVKIQDPCFQNYIACTTTKSQVFVPHTAGRYQVKKFRKTQCPIVERLIG 69
Query: 78 SLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIGSAGVV 137
+LM HGRN GKK + +++VK+A EIIHL+T +NP++V V AV N+GPRED+TRIG+AGVV
Sbjct: 70 TLMFHGRNAGKKALCIKVVKNAFEIIHLVTGRNPLEVFVGAVQNAGPREDSTRIGTAGVV 129
Query: 138 RRQAVDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKGSS-NSYAIKKK 196
R+QAVD++P+RRVN AIY I G RESAF+++++IAE LADE+INA K ++ +S+AI+KK
Sbjct: 130 RKQAVDVAPMRRVNLAIYFIIKGCRESAFKSMRSIAETLADEIINAEKNNTQSSWAIRKK 189
Query: 197 DEIERVAKANR 207
DEIE+VAK NR
Sbjct: 190 DEIEKVAKGNR 200
>2zkq_g 40S ribosomal protein S5E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protei complex; 8.70A {Canis
familiaris}
Length = 204
Score = 303 bits (778), Expect = e-106
Identities = 156/207 (75%), Positives = 179/207 (86%), Gaps = 3/207 (1%)
Query: 1 MATAVVAQSQDPSQPHYDVKLFNRWTFEDVQVNDISLSDYIGVQAAKHATYVPHTAGRYS 60
M A P D+KLF +W+ +DVQ+NDISL DYI V+ K+A Y+PH+AGRY+
Sbjct: 1 MTEWETAAPAVAETP--DIKLFGKWSTDDVQINDISLQDYIAVKE-KYAKYLPHSAGRYA 57
Query: 61 VKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVI 120
KRFRKAQCPIVERLTNS+MMHGRNNGKKLM VRIVKHA EIIHLLT +NP+QV+V+A+I
Sbjct: 58 AKRFRKAQCPIVERLTNSMMMHGRNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAII 117
Query: 121 NSGPREDATRIGSAGVVRRQAVDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADEL 180
NSGPRED+TRIG AG VRRQAVD+SPLRRVNQAI+L+ TGARE+AFRNIKTIAECLADEL
Sbjct: 118 NSGPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECLADEL 177
Query: 181 INAAKGSSNSYAIKKKDEIERVAKANR 207
INAAKGSSNSYAIKKKDE+ERVAK+NR
Sbjct: 178 INAAKGSSNSYAIKKKDELERVAKSNR 204
>1iqv_A Ribosomal protein S7; RNA-binding, decoding center, helix-turn-
helix, ribosome; 2.10A {Pyrococcus horikoshii} SCOP:
a.75.1.1
Length = 218
Score = 293 bits (753), Expect = e-102
Identities = 89/223 (39%), Positives = 122/223 (54%), Gaps = 21/223 (9%)
Query: 1 MATAVVAQSQDPSQPHYDVKLFNRWTFEDVQVNDISLSDYIGVQAAKHATYVPHTAGRYS 60
M + PH ++K+ RW+ EDV+V D SL YI ++ +PHT GR++
Sbjct: 1 MKEVAKPLQERFFIPH-EIKVMGRWSTEDVEVKDPSLKPYINLEP----RLLPHTHGRHA 55
Query: 61 VKRFRKAQCPIVERLTNSLMMHGRN----------------NGKKLMAVRIVKHAMEIIH 104
K F KA IVERL N +M G + N KK+ A +VK A +II
Sbjct: 56 KKHFGKANVHIVERLINKVMRSGGSHYKVAGHFMRREHRSLNSKKVRAYEVVKEAFKIIE 115
Query: 105 LLTDQNPIQVIVDAVINSGPREDATRIGSAGVVRRQAVDISPLRRVNQAIYLITTGARES 164
T +NPIQV+V A+ N+ PRED T + G+ AVDISPLRR++ A+ I GA
Sbjct: 116 KRTGKNPIQVLVWAIENAAPREDTTSVMFGGIRYHVAVDISPLRRLDVALRNIALGASAK 175
Query: 165 AFRNIKTIAECLADELINAAKGSSNSYAIKKKDEIERVAKANR 207
+R + AE LA+E+I AA SYA KK EIER+A+++R
Sbjct: 176 CYRTKMSFAEALAEEIILAANKDPKSYAYSKKLEIERIAESSR 218
>3bbn_G Ribosomal protein S7; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 155
Score = 81.0 bits (201), Expect = 8e-20
Identities = 45/139 (32%), Positives = 75/139 (53%), Gaps = 13/139 (9%)
Query: 71 IVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED--A 128
+V L N ++ HG KK +A +I+ A++ I T+ NP+ V+ A+ P A
Sbjct: 22 LVNMLVNRILKHG----KKSLAYQILYRAVKKIQQKTETNPLSVLRQAIRGVTPDIAVKA 77
Query: 129 TRIGSAGVVRRQAVDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKGSS 188
R+G G + ++I + AI + AR+ R + +A L+ EL++AAKGS
Sbjct: 78 RRVG--GSTHQVPIEIGSTQGKALAIRWLLGAARK---RPGRNMAFKLSSELVDAAKGSG 132
Query: 189 NSYAIKKKDEIERVAKANR 207
+ A++KK+E R+A+ANR
Sbjct: 133 D--AVRKKEETHRMAEANR 149
>1hus_A Ribosomal protein S7; RNA-binding protein, decoding center,; 2.50A
{Geobacillus stearothermophilus} SCOP: a.75.1.1
Length = 155
Score = 76.8 bits (190), Expect = 3e-18
Identities = 47/141 (33%), Positives = 79/141 (56%), Gaps = 15/141 (10%)
Query: 70 PIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED-- 127
+V RL N +M+ G KK A +I+ A +II T ++P++V A+ N P +
Sbjct: 20 KLVTRLINKIMIDG----KKSKAQKILYTAFDIIRERTGKDPMEVFEQALKNVMPVLEVR 75
Query: 128 ATRIGSAGVVRRQA-VDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKG 186
A R+G A Q V++ P RRV+ + + AR RN KT+ E LA+E+++AA
Sbjct: 76 ARRVGGANY---QVPVEVRPDRRVSLGLRWLVQYARL---RNEKTMEERLANEIMDAANN 129
Query: 187 SSNSYAIKKKDEIERVAKANR 207
+ A+KK+++ ++A+AN+
Sbjct: 130 TGA--AVKKREDTHKMAEANK 148
>3gty_S TF, 30S ribosomal protein S7; chaperone-client complex, cell cycle,
cell division, chapero isomerase, rotamase,
ribonucleoprotein, binding; 3.40A {Thermotoga maritima}
Length = 149
Score = 76.8 bits (190), Expect = 3e-18
Identities = 46/141 (32%), Positives = 73/141 (51%), Gaps = 15/141 (10%)
Query: 70 PIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED-- 127
+V +L N +M G KK +A +IV A +II T ++P++V AV N P +
Sbjct: 14 VLVAKLINRVMWDG----KKTIAQKIVYGAFDIIREKTKKDPLEVFRQAVENVKPVLEVR 69
Query: 128 ATRIGSAGVVRRQA-VDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKG 186
R+G A Q +++ RR + A+ I AR + + + E LA+E+I A
Sbjct: 70 PRRVGGATY---QVPIEVQEPRRTSLALRWIVEAARA---KKGRPMKEKLAEEIIAAYNN 123
Query: 187 SSNSYAIKKKDEIERVAKANR 207
+ AIKKK++ R+A+ANR
Sbjct: 124 TGT--AIKKKEDTHRMAEANR 142
>1rss_A Ribosomal protein S7; RNA-binding, translation; 1.90A {Thermus
thermophilus} SCOP: a.75.1.1 PDB: 1n32_G* 1i95_G*
1i96_G* 1i97_G* 1i94_G 1j5e_G* 1n33_G* 1n34_G 1n36_G
1pns_G 1pnx_G 1voq_G 1vos_G 1vov_G 1vox_G 1voz_G 2e5l_G
2zm6_G 3fic_G* 3mr8_G ...
Length = 151
Score = 76.4 bits (189), Expect = 4e-18
Identities = 48/141 (34%), Positives = 76/141 (53%), Gaps = 15/141 (10%)
Query: 70 PIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED-- 127
+V N +M G KK +A RI A +II T Q P++V AV N PR +
Sbjct: 16 VLVTAFINKIMRDG----KKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVR 71
Query: 128 ATRIGSAGVVRRQA-VDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKG 186
+ R+G A Q +++SP R+ + A+ + A + R + A +A EL++AA+G
Sbjct: 72 SRRVGGANY---QVPMEVSPRRQQSLALRWLVQAANQ---RPERRAAVRIAHELMDAAEG 125
Query: 187 SSNSYAIKKKDEIERVAKANR 207
A+KKK+++ER+A+ANR
Sbjct: 126 KGG--AVKKKEDVERMAEANR 144
>3i1m_G 30S ribosomal protein S7; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_G* 3e1a_U 3e1c_U 1vs5_G 3i1o_G
3i1q_G 3i1s_G 3i1z_G 3i21_G 3izv_K* 3izw_K* 3kc4_G
3or9_G 3ora_G 3uoq_G* 2qal_G* 1p6g_G 1p87_G 2aw7_G
2avy_G ...
Length = 179
Score = 77.3 bits (191), Expect = 4e-18
Identities = 41/141 (29%), Positives = 75/141 (53%), Gaps = 15/141 (10%)
Query: 70 PIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED-- 127
++ + N LM+ G KK A IV A+E + + ++ ++ A+ N P +
Sbjct: 21 ELLAKFVNILMVDG----KKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVK 76
Query: 128 ATRIGSAGVVRRQA-VDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAKG 186
+ R+G + Q V++ P+RR A+ I AR+ R K++A LA+EL +AA+
Sbjct: 77 SRRVGGSTY---QVPVEVRPVRRNALAMRWIVEAARK---RGDKSMALRLANELSDAAEN 130
Query: 187 SSNSYAIKKKDEIERVAKANR 207
A+KK++++ R+A+AN+
Sbjct: 131 KGT--AVKKREDVHRMAEANK 149
>3r8n_G 30S ribosomal protein S7; protein biosynthesis, RNA, tRNA, transfer
RNA, 16S ribosomal subunit, RRF; 3.00A {Escherichia
coli} PDB: 2ykr_G 3oaq_G 3ofa_G 3ofx_G 3ofo_G 3r8o_G
3sfs_G* 3ofp_G 3fih_G* 2wwl_G 3oar_G 3ofb_G 3ofy_G
4a2i_G 2gy9_G 2gyb_G
Length = 151
Score = 74.5 bits (184), Expect = 2e-17
Identities = 41/142 (28%), Positives = 75/142 (52%), Gaps = 17/142 (11%)
Query: 70 PIVERLTNSLMMHGRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPRED-- 127
++ + N LM+ G KK A IV A+E + + ++ ++ A+ N P +
Sbjct: 20 ELLAKFVNILMVDG----KKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVK 75
Query: 128 ATRIGSAG--VVRRQAVDISPLRRVNQAIYLITTGARESAFRNIKTIAECLADELINAAK 185
+ R+G + V V++ P+RR A+ I AR+ R K++A LA+EL +AA+
Sbjct: 76 SRRVGGSTYQV----PVEVRPVRRNALAMRWIVEAARK---RGDKSMALRLANELSDAAE 128
Query: 186 GSSNSYAIKKKDEIERVAKANR 207
A+KK++++ R+A+AN+
Sbjct: 129 NKGT--AVKKREDVHRMAEANK 148
>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 = 32.1 bits (72), Expect = 0.13
Identities = 35/226 (15%), Positives = 70/226 (30%), Gaps = 65/226 (28%)
Query: 3 TAVVAQSQDPSQPHYDVKLFNRW-TF------EDV--QVNDISLS-DYIGVQAAKHATYV 52
V S Q D K+F W E V + + D + H++ +
Sbjct: 167 ALDVCLSYKV-QCKMDFKIF--WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 53 PHT--AGRYSVKRFRKAQCPIVERLTNSLMMHGRNNGKKLMAVRIVKH--AMEI---IHL 105
+ + ++R K++ N L++ L+ V+ K A + I L
Sbjct: 224 KLRIHSIQAELRRLLKSK-----PYENCLLV--------LLNVQNAKAWNAFNLSCKI-L 269
Query: 106 LTDQNPIQVIVDAVINSGPR------------EDATR------IG-SAGVVRRQAVDISP 146
LT + + + D + + D + + + R+ + +P
Sbjct: 270 LTTRF--KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP 327
Query: 147 LRRVNQAIYLITTGARESAFR--NIKTIAECLADELINAAKGSSNS 190
+ +I R+ N K + D+L + S N
Sbjct: 328 R-----RLSIIAESIRDGLATWDNWKHV---NCDKLTTIIESSLNV 365
>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 = 29.2 bits (65), Expect = 1.2
Identities = 20/112 (17%), Positives = 41/112 (36%), Gaps = 24/112 (21%)
Query: 28 EDVQVNDISLSDYIGVQAAKHATYVPHTA-GRYSVKRFRKAQCPIVERLTNSLMMHGRNN 86
+D+ N++S + A V T G R I ER+ + ++
Sbjct: 441 KDLVKNNVSFN------AKDIQIPVYDTFDG----SDLRVLSGSISERIVD-CIIRLPVK 489
Query: 87 GKKLMAVRIVKHAMEI-------IHLLTDQNP----IQVIVDAVINSGPRED 127
+ + H ++ + +LT +N ++VIV ++ P +D
Sbjct: 490 WETTTQFKAT-HILDFGPGGASGLGVLTHRNKDGTGVRVIVAGTLDINPDDD 540
>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 = 27.2 bits (59), Expect = 2.5
Identities = 8/30 (26%), Positives = 16/30 (53%), Gaps = 4/30 (13%)
Query: 72 VERLTNSLMMHGRNNGKKLMAVRIVKHAME 101
+++L SL ++ ++ L A +K ME
Sbjct: 22 LKKLQASLKLYADDSAPAL-A---IKATME 47
>2yxb_A Coenzyme B12-dependent mutase; alpha/beta, structural genomics,
NPPSFA, national project on structural and functional
analyses; 1.80A {Aeropyrum pernix}
Length = 161
Score = 27.4 bits (61), Expect = 2.7
Identities = 15/50 (30%), Positives = 24/50 (48%), Gaps = 5/50 (10%)
Query: 83 GRNNGKKLMAVRIVKHAMEIIHLLTDQNPIQVIVDAVINSGPREDATRIG 132
G + G K++A + E+++ Q P QV + AV +ED IG
Sbjct: 30 GHDRGAKVVARALRDAGFEVVYTGLRQTPEQVAMAAV-----QEDVDVIG 74
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.0 bits (59), Expect = 3.3
Identities = 6/30 (20%), Positives = 13/30 (43%)
Query: 178 DELINAAKGSSNSYAIKKKDEIERVAKANR 207
E AK + ++ +++E+ NR
Sbjct: 110 QEWREKAKKDLEEWNQRQSEQVEKNKINNR 139
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
0.319 0.131 0.368
Gapped
Lambda K H
0.267 0.0682 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,170,423
Number of extensions: 192480
Number of successful extensions: 438
Number of sequences better than 10.0: 1
Number of HSP's gapped: 414
Number of HSP's successfully gapped: 18
Length of query: 207
Length of database: 6,701,793
Length adjustment: 89
Effective length of query: 118
Effective length of database: 4,216,824
Effective search space: 497585232
Effective search space used: 497585232
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: 55 (25.1 bits)