RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8862
(265 letters)
>3j01_A Preprotein translocase SECY subunit; ribonucleoprotein,
nucleotide-binding, PR biosynthesis, translation,
zinc-finger, 70S ribosome, ribos translocon; 7.10A
{Escherichia coli 536} PDB: 2akh_Y 2aki_Y
Length = 435
Score = 255 bits (653), Expect = 3e-83
Identities = 92/183 (50%), Positives = 131/183 (71%), Gaps = 3/183 (1%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
G+ IPIP I+ + L KL E+ + I+ MFNMFSGGALSR +IF+LGIMPYIS+SII+QLL
Sbjct: 29 GSFIPIPGIDAAVLAKLLEQQRGTIIEMFNMFSGGALSRASIFALGIMPYISASIIIQLL 88
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQ---KNLVLDTSFY 144
+ + P +KKEGE G+ KI+QY R+ TL+LAI Q GI+ L + + LV++ F
Sbjct: 89 TVVHPTLAEIKKEGESGRRKISQYTRYGTLVLAIFQSIGIATGLPNMPGMQGLVINPGFA 148
Query: 145 FHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLV 204
F+FT V++LV+GT+FLMWL EQITE G+GNG SIII +GI++ P + + ++ + +
Sbjct: 149 FYFTAVVSLVTGTMFLMWLGEQITERGIGNGISIIIFAGIVAGLPPAIAHTIEQARQGDL 208
Query: 205 NII 207
+ +
Sbjct: 209 HFL 211
>2zjs_Y Preprotein translocase SECY subunit; translocon, SEC,
protein-conducting-channel, membrane, prote transport,
translocation, transmembrane, transport; 3.20A {Thermus
thermophilus} PDB: 2zqp_Y
Length = 434
Score = 248 bits (635), Expect = 1e-80
Identities = 68/185 (36%), Positives = 109/185 (58%), Gaps = 5/185 (2%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
GA IP P ++ ++ + Q + G+ N+FSGG R +IF+LGIMPYI+++IIMQ+L
Sbjct: 31 GAFIPTPGVDLDKIQEFLRTAQGGVFGIINLFSGGNFERFSIFALGIMPYITAAIIMQIL 90
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDTS 142
+++P E L KEGE G+ I QY R + L QG ++ +
Sbjct: 91 VTVVPALEKLSKEGEEGRRIINQYTRIGGIALGAFQGFFLATAFLGAEGGRFLLPGWSPG 150
Query: 143 FYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKID 202
+F F V+T V+G L+W++E+ITEYG+GNGTS+II +GI+ + ++ + L++
Sbjct: 151 PFFWFVVVVTQVAGIALLLWMAERITEYGIGNGTSLIIFAGIVVEWLPQILRTIGLIRTG 210
Query: 203 LVNII 207
VN++
Sbjct: 211 EVNLV 215
>3dl8_G Preprotein translocase subunit SECY; RECA-type ATPase membrane
protein translocation protein- protein complex,
ATP-binding, cell membrane; 7.50A {Aquifex aeolicus}
Length = 429
Score = 245 bits (629), Expect = 1e-79
Identities = 79/186 (42%), Positives = 127/186 (68%), Gaps = 6/186 (3%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
G+HIPIP IN L + + ++ ++++FSGG L RLT+F+LG+MPYIS+SI+MQLL
Sbjct: 31 GSHIPIPGINPEALRDFLKAFEGSVFALYDIFSGGNLGRLTVFALGVMPYISASIMMQLL 90
Query: 88 SSIMPKFENL-KKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKN-----LVLDT 141
+ +P + L K+EG+ G+YKI +Y ++ TL +A +Q GI+ ++ Q + +V +
Sbjct: 91 TVAIPSLQRLAKEEGDYGRYKINEYTKYLTLFVATVQSLGIAFWIRGQVSPKGIPVVENP 150
Query: 142 SFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKI 201
F TVLTLV+GT+FL+W++++ITE G+GNG S+II +GI+++FPN +I + VK
Sbjct: 151 GISFILITVLTLVAGTMFLVWIADRITEKGIGNGASLIIFAGIVANFPNAVIQFYEKVKT 210
Query: 202 DLVNII 207
+ +
Sbjct: 211 GDIGPL 216
>3din_C Preprotein translocase subunit SECY; protein translocation,
membrane protein, ATPase, ATP-binding membrane,
nucleotide-binding, protein transport; HET: ADP; 4.50A
{Thermotoga maritima MSB8}
Length = 431
Score = 234 bits (600), Expect = 2e-75
Identities = 62/176 (35%), Positives = 109/176 (61%), Gaps = 8/176 (4%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQ-----NNILGMFNMFSGGALSRLTIFSLGIMPYISSSI 82
G +IP+P +N ++F + IL +++F+GGALSR ++F++ + PYI++SI
Sbjct: 31 GIYIPVPGLNLEAWGEIFRRIAETAGVAGILSFYDVFTGGALSRFSVFTMSVTPYITASI 90
Query: 83 IMQLLSSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLD-- 140
I+QLL+S+MP + + +EGE G+ K A+Y R TL++ Q +S L ++
Sbjct: 91 ILQLLASVMPSLKEMLREGEEGRKKFAKYTRRLTLLIGGFQAFFVSFSLARSNPDMVAPG 150
Query: 141 -TSFYFHFTTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINL 195
F + +++++GT+FL+WL E+ITE G+GNG SI+I +GI++ +P+ +
Sbjct: 151 VNVLQFTVLSTMSMLAGTMFLLWLGERITEKGIGNGISILIFAGIVARYPSYIRQA 206
>3mp7_A Preprotein translocase subunit SECY; protein transport, membrane
protein complex, preprotein TRAN membrane insertion,;
2.90A {Pyrococcus furiosus}
Length = 482
Score = 183 bits (467), Expect = 3e-55
Identities = 35/188 (18%), Positives = 70/188 (37%), Gaps = 14/188 (7%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
A IP+ I + + + G +I +LGI P +++ II+QLL
Sbjct: 43 LAEIPVYGIP---------ERIQDYFQFLRVVLAG--RNGSILTLGIGPIVTAGIILQLL 91
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
+ L + R ++ + + + L + +D ++
Sbjct: 92 V--GSEIIKLDLANPEDRRFYQALQRVFSVFMCFFEAAVWILGGAFG-RVGVDVTYAIAV 148
Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
+L L G I L+ L E ++++G+G+G S+ I +G+ + +N L I
Sbjct: 149 LMILQLAMGGIVLIILDELVSKWGIGSGISLFIAAGVSQTILTRSLNPLTDPNIIDPLTG 208
Query: 208 ENLPNATF 215
+
Sbjct: 209 QPAIVGAI 216
>1rh5_A Preprotein translocase SECY subunit; protein translocation, SECY,
membrane protein, protein channels, protein transport;
3.20A {Methanocaldococcus jannaschii} SCOP: f.41.1.1
PDB: 1rhz_A 2yxq_A 3dkn_A 2yxr_A 3bo0_A 3bo1_A 3kcr_A
Length = 436
Score = 180 bits (460), Expect = 2e-54
Identities = 30/188 (15%), Positives = 70/188 (37%), Gaps = 18/188 (9%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
I + + I + + T+ +LGI P +++ IIMQLL
Sbjct: 40 MGCIDVYTAG---------AQIPAIFEFWQTITASR--IGTLITLGIGPIVTAGIIMQLL 88
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
+ + + ++I+ ++ + F
Sbjct: 89 VG--SGIIQMDLSIPENRALFQGCQKLLSIIMCFVEAVLFVGAG-----AFGILTPLLAF 141
Query: 148 TTVLTLVSGTIFLMWLSEQITEYGLGNGTSIIICSGIISSFPNILINLLKLVKIDLVNII 207
++ + G+I L++L E +++YG+G+G + I +G+ + + + L ++I
Sbjct: 142 LVIIQIAFGSIILIYLDEIVSKYGIGSGIGLFIAAGVSQTIFVGALGPEGYLWKFLNSLI 201
Query: 208 ENLPNATF 215
+ +PN +
Sbjct: 202 QGVPNIEY 209
>1ah9_A IF1, initiation factor 1; ribosome binding, protein-RNA
interaction, OB fold; NMR {Escherichia coli} SCOP:
b.40.4.5
Length = 71
Score = 119 bits (300), Expect = 5e-35
Identities = 43/60 (71%), Positives = 52/60 (86%)
Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
++E LPN F+V+LEN HV+ HISGKMR NYIRIL GDKVTVELTPYDLS+GRI+FR++
Sbjct: 12 VLETLPNTMFRVELENGHVVTAHISGKMRKNYIRILTGDKVTVELTPYDLSKGRIVFRSR 71
>3i4o_A Translation initiation factor IF-1; cytoplasm, protein
biosynthesis; 1.47A {Mycobacterium tuberculosis}
Length = 79
Score = 117 bits (296), Expect = 3e-34
Identities = 40/60 (66%), Positives = 51/60 (85%)
Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFRTK 265
++E LPNA F+++LEN H +L HISGKMR +YIRILP D+V VEL+PYDLSRGRI++R K
Sbjct: 20 VVEPLPNAMFRIELENGHKVLAHISGKMRQHYIRILPEDRVVVELSPYDLSRGRIVYRYK 79
>1hr0_W Translation initiation factor; ribosomal subunit, ribosome, IF1;
3.20A {Escherichia coli} SCOP: b.40.4.5 PDB: 1zo1_W
Length = 71
Score = 117 bits (295), Expect = 3e-34
Identities = 39/58 (67%), Positives = 50/58 (86%)
Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
+ E LPNATF+VKL++ IL +ISGKMRM+YIRILPGD+V VE+TPYD +RGRI++R
Sbjct: 13 VTEALPNATFRVKLDSGPEILAYISGKMRMHYIRILPGDRVVVEITPYDPTRGRIVYR 70
>2wwb_A Protein transport protein SEC61 subunit alpha ISO; ribosome,
protein EXIT tunnel, cotranslational protein
translocation, protein conducting channel; 6.48A {Canis
lupus familiaris}
Length = 476
Score = 121 bits (304), Expect = 7e-32
Identities = 34/172 (19%), Positives = 62/172 (36%), Gaps = 16/172 (9%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
IP+ I S F + M A +R T+ LGI P ++S +IMQLL
Sbjct: 45 CCQIPLFGIMSSDSADPF----------YWMRVILASNRGTLMELGISPIVTSGLIMQLL 94
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
+ + + + +I+ I Q I ++ +
Sbjct: 95 AGAKIIEVGDTPK---DRALFNGAQKLFGMIITIGQ--SIVYVMTGMYGDPSEMGAGICL 149
Query: 148 TTVLTLVSGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKL 198
+ L + ++ L E + + YGLG+G S+ I + I + + +
Sbjct: 150 LITIQLFVAGLIVLLLDELLQKGYGLGSGISLFIATNICETIVWKAFSPTTV 201
>2ww9_A SEC sixty-one protein homolog; ribonucleoprotein, transmembrane,
phospho signal sequence, membrane, ribosome, transport;
8.60A {Saccharomyces cerevisiae} PDB: 2wwa_A
Length = 490
Score = 104 bits (259), Expect = 1e-25
Identities = 27/172 (15%), Positives = 59/172 (34%), Gaps = 14/172 (8%)
Query: 28 GAHIPIPSINYSQLTKLFEKNQNNILGMFNMFSGGALSRLTIFSLGIMPYISSSIIMQLL 87
A P+ + + + + ++ + T+ G+ P ISS +I+QLL
Sbjct: 45 FAQFPLVGLPKATTPNVND-------PIYFLRGVFGCEPRTLLEFGLFPNISSGLILQLL 97
Query: 88 SSIMPKFENLKKEGELGKYKIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHF 147
+ K + + + + + ++ ++ + D S
Sbjct: 98 A--GLKVIKVNFKIQSDRELFQSLTKVFAIVQYVILTNIFIFAG----YFGDDLSVVQIG 151
Query: 148 TTVLTLVSGTIFLMWLSEQITE-YGLGNGTSIIICSGIISSFPNILINLLKL 198
LV IF L+E I + +G +G II I ++ + ++
Sbjct: 152 LINFQLVGAGIFTTLLAEVIDKGFGFSSGAMIINTVVIATNLVADTFGVSQI 203
>1d7q_A Translation initiation factor 1A; OB-fold, beta-barrel, RNA-binding
protein, gene regulation; NMR {Homo sapiens} SCOP:
b.40.4.5
Length = 143
Score = 53.9 bits (129), Expect = 2e-09
Identities = 15/58 (25%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
+I+ L N + + L HI GK+R + I D + V L Y ++ +I +
Sbjct: 37 VIKMLGNGRLEAMCFDGVKRLCHIRGKLR-KKVWINTSDIILVGLRDYQDNKADVILK 93
>2oqk_A Putative translation initiation factor EIF-1A; malaria, eukaryotic
initiation facto SGC, structural genomics; 1.80A
{Cryptosporidium parvum iowa II}
Length = 117
Score = 51.2 bits (122), Expect = 1e-08
Identities = 19/58 (32%), Positives = 25/58 (43%), Gaps = 1/58 (1%)
Query: 206 IIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
+ L N + L HI GKMR + PGD V V L + S+G II +
Sbjct: 38 VQRMLGNGRLDAYCFDGQKRLCHIRGKMRKKV-WVNPGDIVLVSLRDFQDSKGDIILK 94
>3bbo_N Ribosomal protein L15; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 257
Score = 50.6 bits (121), Expect = 1e-07
Identities = 12/28 (42%), Positives = 17/28 (60%)
Query: 1 MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
RL+N+ P ++ KR GRGI +G G
Sbjct: 65 FRLDNLGPQPGSRKRPKRKGRGIAAGQG 92
>3v2d_P 50S ribosomal protein L15; ribosome associated inhibitor A, RAIA,
protein Y, stress RES stationary phase, ribosome
hibernation, ribosome; 2.70A {Thermus thermophilus}
PDB: 1vsp_J 2hgj_O 2hgq_O 2hgu_O 1vsa_J 2j03_P 2jl6_P
2jl8_P 2v47_P 2v49_P 2wdi_P 2wdj_P 2wdl_P 2wdn_P 2wh2_P
2wh4_P 2wrj_P 2wrl_P 2wro_P 2wrr_P ...
Length = 150
Score = 48.7 bits (117), Expect = 1e-07
Identities = 14/28 (50%), Positives = 20/28 (71%)
Query: 1 MRLNNILPNKDAKHYKKRLGRGIGSGSG 28
M+L+++ PN A +KR+GRG GSG G
Sbjct: 1 MKLSDLRPNPGANKRRKRVGRGPGSGHG 28
>3r8s_L 50S ribosomal protein L15; protein biosynthesis, RNA, tRNA,
transfer RNA, 23S ribosomal subunit, ribosome recycling
factor, RRF, ribosome; 3.00A {Escherichia coli} PDB:
3fik_L 2wwq_L 3oat_L* 3oas_L* 3ofd_L 3ofc_L 3ofr_L*
3ofz_L* 3og0_L 3ofq_L 3r8t_L 3i1n_L 1p85_J 1p86_J
1vs8_L 1vs6_L 2aw4_L 2awb_L 1vt2_L 2i2v_L ...
Length = 143
Score = 46.3 bits (111), Expect = 8e-07
Identities = 16/27 (59%), Positives = 19/27 (70%)
Query: 2 RLNNILPNKDAKHYKKRLGRGIGSGSG 28
RLN + P + +K KRLGRGIGSG G
Sbjct: 1 RLNTLSPAEGSKKAGKRLGRGIGSGLG 27
>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 = 46.6 bits (110), Expect = 5e-06
Identities = 46/267 (17%), Positives = 93/267 (34%), Gaps = 87/267 (32%)
Query: 3 LNNILPNKDAKHYKKRLGRGIGSGSGAHIPIPSINYSQLT------------KLFEKNQN 50
+NN P H+ G+ I NYS + K+F++
Sbjct: 1666 INN--PVNLTIHFGGEKGKRIRE-----------NYSAMIFETIVDGKLKTEKIFKEINE 1712
Query: 51 NILGMFNMFSG--GALSRLTIFSLGIMPYISSSIIMQ---LLSSIMPKFENLKKEGE--- 102
+ F G LS T F+ Q L FE+LK +G
Sbjct: 1713 HSTSY--TFRSEKGLLS-ATQFT-------------QPALTLMEKAA-FEDLKSKGLIPA 1755
Query: 103 --------LGKY----KIAQYIRFSTLILAILQGSGISLILKSQKNLVLDTSFYFHFTTV 150
LG+Y +A + +L+ ++ G+++ + ++ + +++ +
Sbjct: 1756 DATFAGHSLGEYAALASLADVMSIESLV-EVVFYRGMTMQVAVPRDELGRSNY-----GM 1809
Query: 151 LTLVSGTIFLMWLSEQITEY--GLGNGT----SI---------IICSG---IISSFPNIL 192
+ + G + + E + +G T I + +G + + N+L
Sbjct: 1810 IAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVL 1869
Query: 193 INLLKLVKIDLVNIIENLPNATFKVKL 219
N +KL KID++ + ++L + L
Sbjct: 1870 -NFIKLQKIDIIELQKSLSLEEVEGHL 1895
Score = 36.2 bits (83), Expect = 0.012
Identities = 52/262 (19%), Positives = 80/262 (30%), Gaps = 110/262 (41%)
Query: 23 IGSGSGAH-IPIPS---INYSQLTKLFEKNQNNILGMF---NMFSGGA--LSRLTIFSLG 73
+ GS H + +P+ SQL + F K F + + A + + F LG
Sbjct: 11 LSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPAELVGK---F-LG 66
Query: 74 IMPYISSSI-------IMQLLSSIMPKFEN--LK--------------KEGELGKYK--I 108
Y+SS + Q+L+ + +FEN L+ + L K K I
Sbjct: 67 ---YVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELI 123
Query: 109 AQYIR-------------FSTL----------ILAIL--QGSGI---------------- 127
YI S L ++AI QG+
Sbjct: 124 KNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVL 183
Query: 128 --SLILKSQKNLV----LDTSFYFHFTTVLTLVSGTIFLMWLSEQIT----EYGLGNGTS 177
LI S + L FT L ++ WL +Y
Sbjct: 184 VGDLIKFSAETLSELIRTTLDAEKVFTQGLNILE------WLENPSNTPDKDY------- 230
Query: 178 IIICSGIISSFPNILINLLKLV 199
+ S I S P LI +++L
Sbjct: 231 --LLSIPI-SCP--LIGVIQLA 247
>2zjr_I 50S ribosomal protein L15; ribosome, large ribosomal subunit,
ribonucleoprotein, RNA-binding, rRNA-binding,
tRNA-binding, methylation; 2.91A {Deinococcus
radiodurans} SCOP: c.12.1.1 PDB: 1nwx_J* 1nwy_J*
1sm1_J* 1xbp_J* 2zjp_I* 2zjq_I 1nkw_J 3cf5_I* 3dll_I*
3pio_I* 3pip_I* 1pnu_J 1pny_J 1vor_M 1vou_M 1vow_M
1voy_M 1vp0_M
Length = 156
Score = 43.7 bits (104), Expect = 9e-06
Identities = 9/26 (34%), Positives = 17/26 (65%)
Query: 1 MRLNNILPNKDAKHYKKRLGRGIGSG 26
M+L+++ P ++ +KR+GRG G
Sbjct: 1 MKLHDLKPTPGSRKDRKRVGRGPGGT 26
>2dgy_A MGC11102 protein; EIF-1A, structural genomics, NPPSFA, national
project on protein structural and functional analyses;
NMR {Homo sapiens}
Length = 111
Score = 31.0 bits (70), Expect = 0.13
Identities = 13/62 (20%), Positives = 23/62 (37%), Gaps = 2/62 (3%)
Query: 203 LVNIIENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTP-YDLSRGRII 261
+V ++ N +V+ L + K R I I GD + V+ + + I
Sbjct: 18 IVRVLRTPGNNLHEVETAQGQRFLVSMPSKYR-KNIWIKRGDFLIVDPIEEGEKVKAEIS 76
Query: 262 FR 263
F
Sbjct: 77 FV 78
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2,
structure initiative, northeast structural genomics
consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP:
b.40.4.5 b.40.4.16 PDB: 2r7f_A
Length = 469
Score = 30.7 bits (70), Expect = 0.51
Identities = 7/26 (26%), Positives = 11/26 (42%)
Query: 238 IRILPGDKVTVELTPYDLSRGRIIFR 263
PG + V+ DL + R+ R
Sbjct: 434 TPAAPGTALQVQFADIDLPQMRVRAR 459
>3kh8_A MAOC-like dehydratase; hot DOG domain, lyase; 2.00A {Phytophthora
capsici}
Length = 332
Score = 29.9 bits (66), Expect = 0.83
Identities = 4/26 (15%), Positives = 11/26 (42%), Gaps = 2/26 (7%)
Query: 240 ILPGDKVTVELTPYDLSRGRIIFRTK 265
PG+ + + G+++F+
Sbjct: 285 CFPGETIQTRMW--QEGSGKVLFQAV 308
>3bzc_A TEX; helix-turn-helix, helix-hairpin-helix, S1 domain, YQGF domain,
transcription, RNA binding protein; 2.27A {Pseudomonas
aeruginosa} SCOP: a.60.2.6 a.60.2.6 a.294.1.1 b.40.4.5
c.55.3.13 PDB: 3bzk_A 2oce_A
Length = 785
Score = 28.7 bits (65), Expect = 2.5
Identities = 11/40 (27%), Positives = 20/40 (50%), Gaps = 6/40 (15%)
Query: 226 LGHISGKMRMNYIR-----ILPGDKVTVELTPYDLSRGRI 260
L HIS + +++ + GD V V++ D+ R R+
Sbjct: 681 LVHIS-ALSEKFVKDPYEVVKAGDIVKVKVMEVDIPRNRV 719
>2pff_A Fatty acid synthase subunit alpha, 3-oxoacyl-[acyl-carrier-PR; fatty
acid synthase, acyl-carrier-protein, beta-ketoacyl RED
beta-ketoacyl synthase, dehydratase; 4.00A {Saccharomyces
cerevisiae}
Length = 1688
Score = 28.7 bits (64), Expect = 2.6
Identities = 12/52 (23%), Positives = 18/52 (34%), Gaps = 8/52 (15%)
Query: 18 RLGRGIGSGSGAHIPIPSINYSQLTKLFEK--NQNNIL--GMFNMFSGGALS 65
+G GSG G + ++ F+ QN+IL N S
Sbjct: 1043 EVGNCSGSGMGG---VSAL-RGMFKDRFKDEPVQNDILQESFINTMSAWVNM 1090
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR
family, hydrolase; 2.35A {Escherichia coli} SCOP:
b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Length = 644
Score = 28.3 bits (64), Expect = 3.1
Identities = 6/57 (10%), Positives = 17/57 (29%), Gaps = 6/57 (10%)
Query: 207 IENLPNATFKVKLENDHVILGHISGKMRMNYIRILPGDKVTVELTPYDLSRGRIIFR 263
L ++ ++ + + ++ D + V + + II R
Sbjct: 591 APFLHAVRDELVCSQENGTVQIKGETV----YKV--TDVIDVTIAEVRMETRSIIAR 641
>1peq_A Ribonucleoside-diphosphate reductase 2 alpha chain; stranded
alpha/beta barrel, protein-specificity-effector complex,
DTTP; HET: TTP; 2.80A {Salmonella typhimurium} SCOP:
a.98.1.1 c.7.1.2 PDB: 1peo_A* 1pem_A* 1peu_A* 2bq1_E*
Length = 714
Score = 27.6 bits (62), Expect = 5.7
Identities = 14/44 (31%), Positives = 21/44 (47%), Gaps = 3/44 (6%)
Query: 72 LGIMPYISSSIIMQLLSSIMPKFENL--KKEGELGK-YKIAQYI 112
+ P S S I SSI P + +KEG+ G+ Y A ++
Sbjct: 584 QAVPPTGSISYINHATSSIHPIVAKIEIRKEGKTGRVYYPAPFM 627
>3esi_A Uncharacterized protein; protein from erwinia carotovora subsp.
atroseptica (pectobacterium atrosepticum), structural
genomics; 2.50A {Pectobacterium atrosepticum}
Length = 129
Score = 26.2 bits (58), Expect = 7.2
Identities = 6/26 (23%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 240 ILPGDKVTVELTPYDLSRGRIIFRTK 265
ILPG + + L + + + F
Sbjct: 78 ILPGKTLRLVLI-WHAGKQSLTFSYS 102
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
0.323 0.141 0.400
Gapped
Lambda K H
0.267 0.0415 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 3,942,928
Number of extensions: 233838
Number of successful extensions: 692
Number of sequences better than 10.0: 1
Number of HSP's gapped: 666
Number of HSP's successfully gapped: 38
Length of query: 265
Length of database: 6,701,793
Length adjustment: 92
Effective length of query: 173
Effective length of database: 4,133,061
Effective search space: 715019553
Effective search space used: 715019553
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.2 bits)