RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy10065
(215 letters)
>2zkq_g 40S ribosomal protein S5E; protein-RNA complex, 40S ribosomal
subunit, ribosomal protei complex; 8.70A {Canis
familiaris}
Length = 204
Score = 288 bits (738), Expect = e-100
Identities = 157/177 (88%), Positives = 168/177 (94%)
Query: 34 SSIAAPAELPEIKLFGRWSCDDVQVSDMSLQDYIAVKEKNAKFLPHSAGRYAAKRFRKAQ 93
++ A AE P+IKLFG+WS DDVQ++D+SLQDYIAVKEK AK+LPHSAGRYAAKRFRKAQ
Sbjct: 6 TAAPAVAETPDIKLFGKWSTDDVQINDISLQDYIAVKEKYAKYLPHSAGRYAAKRFRKAQ 65
Query: 94 CPIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPREDS 153
CPIVERLTNS+MMHGRNN KKLM VRIVKHAFEIIHLLTGENPLQ+LV AIINSGPREDS
Sbjct: 66 CPIVERLTNSMMMHGRNNGKKLMTVRIVKHAFEIIHLLTGENPLQVLVNAIINSGPREDS 125
Query: 154 TRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECVADELINAAK 210
TRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAEC+ADELINAAK
Sbjct: 126 TRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECLADELINAAK 182
>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 = 286 bits (733), Expect = 4e-99
Identities = 116/178 (65%), Positives = 141/178 (79%), Gaps = 2/178 (1%)
Query: 37 AAPAELPEIKLFGRWSCDDVQVSDMSLQDYIAVKEKNAKFLPHSAGRYAAKRFRKAQCPI 96
EIKLF +WS ++V+V D SL DY+ V++ F+ H+AGRYA KRFRKAQCPI
Sbjct: 32 EVQQAQTEIKLFNKWSFEEVEVKDASLVDYVQVRQP--IFVAHTAGRYANKRFRKAQCPI 89
Query: 97 VERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPREDSTRI 156
+ERLTNSLMM+GRNN KKL AVRI+KH +II++LT +NP+Q++V AI N+GPRED+TR+
Sbjct: 90 IERLTNSLMMNGRNNGKKLKAVRIIKHTLDIINVLTDQNPIQVVVDAITNTGPREDTTRV 149
Query: 157 GRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECVADELINAAKFNQN 214
G G RRQAVDVSPLRRVNQAI LL GAREAAFRNIKTIAE +A+ELINAAK +
Sbjct: 150 GGGGAARRQAVDVSPLRRVNQAIALLTIGAREAAFRNIKTIAETLAEELINAAKGSST 207
>2xzm_G Ribosomal protein S7 containing protein; ribosome, translation;
3.93A {Tetrahymena thermophila} PDB: 2xzn_G 3j0o_T
3j0l_T
Length = 200
Score = 283 bits (727), Expect = 1e-98
Identities = 98/174 (56%), Positives = 133/174 (76%), Gaps = 1/174 (0%)
Query: 38 APAELPEIKLFGRWSCDDVQVSDMSLQDYIAV-KEKNAKFLPHSAGRYAAKRFRKAQCPI 96
+ KLFG+W+ D+V++ D Q+YIA K+ F+PH+AGRY K+FRK QCPI
Sbjct: 4 EKGFATQPKLFGKWNYDEVKIQDPCFQNYIACTTTKSQVFVPHTAGRYQVKKFRKTQCPI 63
Query: 97 VERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPREDSTRI 156
VERL +LM HGRN KK + +++VK+AFEIIHL+TG NPL++ V A+ N+GPREDSTRI
Sbjct: 64 VERLIGTLMFHGRNAGKKALCIKVVKNAFEIIHLVTGRNPLEVFVGAVQNAGPREDSTRI 123
Query: 157 GRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECVADELINAAK 210
G AG VR+QAVDV+P+RRVN AI+ + G RE+AF+++++IAE +ADE+INA K
Sbjct: 124 GTAGVVRKQAVDVAPMRRVNLAIYFIIKGCRESAFKSMRSIAETLADEIINAEK 177
>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 = 266 bits (682), Expect = 2e-91
Identities = 78/187 (41%), Positives = 110/187 (58%), Gaps = 19/187 (10%)
Query: 44 EIKLFGRWSCDDVQVSDMSLQDYIAVKEKNAKFLPHSAGRYAAKRFRKAQCPIVERLTNS 103
EIK+ GRWS +DV+V D SL+ YI ++ + LPH+ GR+A K F KA IVERL N
Sbjct: 17 EIKVMGRWSTEDVEVKDPSLKPYINLE---PRLLPHTHGRHAKKHFGKANVHIVERLINK 73
Query: 104 LMMHGRN----------------NAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINS 147
+M G + N+KK+ A +VK AF+II TG+NP+Q+LV AI N+
Sbjct: 74 VMRSGGSHYKVAGHFMRREHRSLNSKKVRAYEVVKEAFKIIEKRTGKNPIQVLVWAIENA 133
Query: 148 GPREDSTRIGRAGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIAECVADELIN 207
PRED+T + G AVD+SPLRR++ A+ + GA +R + AE +A+E+I
Sbjct: 134 APREDTTSVMFGGIRYHVAVDISPLRRLDVALRNIALGASAKCYRTKMSFAEALAEEIIL 193
Query: 208 AAKFNQN 214
AA +
Sbjct: 194 AANKDPK 200
>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 = 66.0 bits (162), Expect = 5e-14
Identities = 36/118 (30%), Positives = 59/118 (50%), Gaps = 13/118 (11%)
Query: 96 IVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED--S 153
+V L N ++ HG KK +A +I+ A + I T NPL +L AI P +
Sbjct: 22 LVNMLVNRILKHG----KKSLAYQILYRAVKKIQQKTETNPLSVLRQAIRGVTPDIAVKA 77
Query: 154 TRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
R+G G+ + +++ + AI WLL AR+ R + +A ++ EL++AAK
Sbjct: 78 RRVG--GSTHQVPIEIGSTQGKALAIRWLL-GAARK---RPGRNMAFKLSSELVDAAK 129
>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 = 62.9 bits (154), Expect = 5e-13
Identities = 35/119 (29%), Positives = 61/119 (51%), Gaps = 13/119 (10%)
Query: 95 PIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED-- 152
+V +L N +M G KK +A +IV AF+II T ++PL++ A+ N P +
Sbjct: 14 VLVAKLINRVMWDG----KKTIAQKIVYGAFDIIREKTKKDPLEVFRQAVENVKPVLEVR 69
Query: 153 STRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
R+G G + ++V RR + A+ W++ AR + + + E +A+E+I A
Sbjct: 70 PRRVG--GATYQVPIEVQEPRRTSLALRWIV-EAARA---KKGRPMKEKLAEEIIAAYN 122
>1hus_A Ribosomal protein S7; RNA-binding protein, decoding center,; 2.50A
{Geobacillus stearothermophilus} SCOP: a.75.1.1
Length = 155
Score = 62.9 bits (154), Expect = 6e-13
Identities = 42/119 (35%), Positives = 68/119 (57%), Gaps = 13/119 (10%)
Query: 95 PIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED-- 152
+V RL N +M+ G KK A +I+ AF+II TG++P+++ A+ N P +
Sbjct: 20 KLVTRLINKIMIDG----KKSKAQKILYTAFDIIRERTGKDPMEVFEQALKNVMPVLEVR 75
Query: 153 STRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
+ R+G G + V+V P RRV+ + WL+ AR RN KT+ E +A+E+++AA
Sbjct: 76 ARRVG--GANYQVPVEVRPDRRVSLGLRWLV-QYARL---RNEKTMEERLANEIMDAAN 128
>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 = 62.6 bits (153), Expect = 7e-13
Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 13/119 (10%)
Query: 95 PIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED-- 152
+V N +M G KK +A RI A +II TG+ PL++ A+ N PR +
Sbjct: 16 VLVTAFINKIMRDG----KKNLAARIFYDACKIIQEKTGQEPLKVFKQAVENVKPRMEVR 71
Query: 153 STRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
S R+G G + ++VSP R+ + A+ WL+ A + R + A +A EL++AA+
Sbjct: 72 SRRVG--GANYQVPMEVSPRRQQSLALRWLV-QAANQ---RPERRAAVRIAHELMDAAE 124
>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 = 63.0 bits (154), Expect = 8e-13
Identities = 37/119 (31%), Positives = 63/119 (52%), Gaps = 13/119 (10%)
Query: 95 PIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED-- 152
++ + N LM+ G KK A IV A E + +G++ L+ A+ N P +
Sbjct: 21 ELLAKFVNILMVDG----KKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVK 76
Query: 153 STRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
S R+G G+ + V+V P+RR A+ W++ AR+ R K++A +A+EL +AA+
Sbjct: 77 SRRVG--GSTYQVPVEVRPVRRNALAMRWIV-EAARK---RGDKSMALRLANELSDAAE 129
>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 = 61.4 bits (150), Expect = 2e-12
Identities = 37/119 (31%), Positives = 63/119 (52%), Gaps = 13/119 (10%)
Query: 95 PIVERLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPRED-- 152
++ + N LM+ G KK A IV A E + +G++ L+ A+ N P +
Sbjct: 20 ELLAKFVNILMVDG----KKSTAESIVYSALETLAQRSGKSELEAFEVALENVRPTVEVK 75
Query: 153 STRIGRAGTVRRQAVDVSPLRRVNQAI-WLLCTGAREAAFRNIKTIAECVADELINAAK 210
S R+G G+ + V+V P+RR A+ W++ AR+ R K++A +A+EL +AA+
Sbjct: 76 SRRVG--GSTYQVPVEVRPVRRNALAMRWIV-EAARK---RGDKSMALRLANELSDAAE 128
>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 = 32.5 bits (73), Expect = 0.099
Identities = 32/198 (16%), Positives = 58/198 (29%), Gaps = 57/198 (28%)
Query: 28 GGPVGLSSIAAPA---ELPEIKLFGR--W----SCDDVQVSDMSLQDYIAVKEKNAKFLP 78
G G + +A + K+ + W +C+ + LQ + + N
Sbjct: 159 LG-SGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRS 217
Query: 79 HSAGRYAAKRFRKAQCPIVERLTNSLMMHGRNNAKKLMAVRIVKH-----AFEI---IHL 130
+ + R I L L N L+ + V++ AF + I L
Sbjct: 218 DHSSNI---KLRIHS--IQAELRRLLKSKPYENC--LLVLLNVQNAKAWNAFNLSCKI-L 269
Query: 131 LTGENPLQILVTAIINSGPR-------------EDSTR------IG-RAGTVRRQAVDVS 170
LT VT +++ D + + R + R+ + +
Sbjct: 270 LTTRF---KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN 326
Query: 171 PLR--------RVNQAIW 180
P R R A W
Sbjct: 327 PRRLSIIAESIRDGLATW 344
Score = 28.3 bits (62), Expect = 2.2
Identities = 17/73 (23%), Positives = 29/73 (39%), Gaps = 20/73 (27%)
Query: 23 PSE-STGGPVGLSSIAAPAELPE-IKLFGRW---SCDDV-QVSDMSLQ-----------D 65
P E T P LS IA + + + + W +CD + + + SL D
Sbjct: 319 PREVLTTNPRRLSIIA--ESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 66 YIAVKEKNAKFLP 78
++V +A +P
Sbjct: 377 RLSVFPPSAH-IP 388
>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 = 31.6 bits (71), Expect = 0.25
Identities = 33/190 (17%), Positives = 51/190 (26%), Gaps = 78/190 (41%)
Query: 61 MSLQDYIAVKEK-----NAKFLPHSAGRYAA--------------K--RFR-KAQCPIVE 98
M + +K K +A F HS G YAA + +R V
Sbjct: 1739 MEKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVP 1798
Query: 99 RLTNSLMMHGRNNAKKLMAVRIVKHAFEIIHLLTGENPLQILVTAIINSGPREDSTRIGR 158
R GR+N ++A+ + + + LQ +V + R G
Sbjct: 1799 RD-----ELGRSNY-GMIAINPGR-----VAASFSQEALQYVVERV--------GKRTGW 1839
Query: 159 ----------------AGTVRRQAVDVSPLRRVNQAIWLLCTGAREAAFRNIKTIA---- 198
AG +R A+D + + I I
Sbjct: 1840 LVEIVNYNVENQQYVAAGDLR--ALDT------------VTNVLNFIKLQKIDIIELQKS 1885
Query: 199 ---ECVADEL 205
E V L
Sbjct: 1886 LSLEEVEGHL 1895
Score = 26.9 bits (59), Expect = 6.8
Identities = 13/70 (18%), Positives = 21/70 (30%), Gaps = 13/70 (18%)
Query: 4 SIVHVQITMAEDWDADPAYPSESTG----GPVGLSSIAAPAELPEIKLFGRWSCDDVQVS 59
IV I + W+ ++T GP G S + L G +
Sbjct: 478 RIVDCIIRLPVKWET--TTQFKATHILDFGPGGASGLGV---LTHRNKDGTG-VRVIVAG 531
Query: 60 DMSLQ---DY 66
+ + DY
Sbjct: 532 TLDINPDDDY 541
>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 = 29.1 bits (64), Expect = 0.73
Identities = 6/23 (26%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 97 VERLTNSLMMHGRNNAKKLMAVR 119
+++L SL ++ ++A L A++
Sbjct: 22 LKKLQASLKLYADDSAPAL-AIK 43
>1dpg_A G6PD, glucose 6-phosphate dehydrogenase; oxidoreductase, NADP/NAD,
glucose metabolism, oxidoreductase (CHOH(D) - NAD(P));
2.00A {Leuconostoc mesenteroides} SCOP: c.2.1.3 d.81.1.5
PDB: 1e7y_A* 1e7m_A* 1h93_A 1h94_A* 1h9a_A* 1e77_A*
1h9b_A 2dpg_A*
Length = 485
Score = 27.9 bits (63), Expect = 2.5
Identities = 5/11 (45%), Positives = 9/11 (81%)
Query: 5 IVHVQITMAED 15
I +VQ+T++E
Sbjct: 207 IKNVQVTLSEV 217
>2bh9_A G6PD, glucose-6-phosphate 1-dehydrogenase; oxidoreductase,
oxidoreductase (CHOH(D)-NADP), carbohydrate metabolism,
glucose metabolism; HET: NAP; 2.5A {Homo sapiens} PDB:
2bhl_A* 1qki_A*
Length = 489
Score = 27.9 bits (63), Expect = 3.1
Identities = 4/11 (36%), Positives = 5/11 (45%)
Query: 5 IVHVQITMAED 15
I V +T E
Sbjct: 204 IACVILTFKEP 214
>4e9i_A Glucose-6-phosphate 1-dehydrogenase; pentose phosphate pathway,
alpha beta, NAD(P) rossmann-like domain, oxidoreductase;
2.85A {Trypanosoma cruzi} PDB: 4em5_A*
Length = 541
Score = 27.6 bits (62), Expect = 3.2
Identities = 6/11 (54%), Positives = 6/11 (54%)
Query: 5 IVHVQITMAED 15
I VQIT E
Sbjct: 262 IACVQITFKEK 272
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 26.8 bits (60), Expect = 5.5
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 28 GGPVGLSSIAA 38
P+GL+SIAA
Sbjct: 277 QKPIGLASIAA 287
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 26.8 bits (60), Expect = 5.7
Identities = 8/11 (72%), Positives = 11/11 (100%)
Query: 28 GGPVGLSSIAA 38
GGPVGL+++AA
Sbjct: 274 GGPVGLNALAA 284
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 26.8 bits (60), Expect = 6.3
Identities = 7/11 (63%), Positives = 10/11 (90%)
Query: 28 GGPVGLSSIAA 38
GGPVGL+++A
Sbjct: 262 GGPVGLATLAT 272
>4fb5_A Probable oxidoreductase protein; PSI-biology, nysgrc, structural
genomics, NEW YORK structura genomics research
consortium, GFO/IDH/MOCA family; 2.61A {Rhizobium etli}
Length = 393
Score = 26.2 bits (58), Expect = 9.1
Identities = 8/19 (42%), Positives = 12/19 (63%)
Query: 5 IVHVQITMAEDWDADPAYP 23
+ HV++ M ED+ ADP
Sbjct: 175 VNHVRVEMDEDFMADPDIF 193
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 0.132 0.388
Gapped
Lambda K H
0.267 0.0681 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,280,974
Number of extensions: 195375
Number of successful extensions: 291
Number of sequences better than 10.0: 1
Number of HSP's gapped: 275
Number of HSP's successfully gapped: 23
Length of query: 215
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 125
Effective length of database: 4,188,903
Effective search space: 523612875
Effective search space used: 523612875
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)