RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780779|ref|YP_003065192.1| 30S ribosomal protein S2
[Candidatus Liberibacter asiaticus str. psy62]
(278 letters)
>3ofo_B 30S ribosomal protein S2; protein biosynthesis, ribosomes, RNA,
tRNA, transfer, eryThr ketolide, macrolide, antibiotic,
EXIT, peptidyl; 3.10A {Escherichia coli} PDB: 3fih_B*
2wwl_B 3ofp_B 3i1m_B 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B
3i1q_B 3i1s_B 3i1z_B 3i21_B 3kc4_B 3or9_B 3ora_B 2qal_B*
1p87_B 2aw7_B 2avy_B ...
Length = 218
Score = 279 bits (715), Expect = 5e-76
Identities = 110/218 (50%), Positives = 153/218 (70%), Gaps = 1/218 (0%)
Query: 11 LLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRIL 70
+L++GV FGH+ WNPKM+ +IF RN HII+L +TVPM +AL ++ +R G+IL
Sbjct: 1 MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKIL 60
Query: 71 FVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELL-NKENQG 129
FV TK AS+ V +AA Q+ VN +WLGGM+TNWKTV QSI++L+DLE +
Sbjct: 61 FVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDK 120
Query: 130 FTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVAVVD 189
TKKE L R+ +KL+ +L GI+DMGGLPD +FV+D + E +AI+EA L IP+ A+VD
Sbjct: 121 LTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVD 180
Query: 190 TNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIA 227
TNS+PD VD+VIPGNDD+ R++ L+ VA+ +G +
Sbjct: 181 TNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRS 218
>3bbn_B Ribosomal protein S2; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea} SCOP: i.1.1.1
Length = 231
Score = 239 bits (612), Expect = 4e-64
Identities = 85/220 (38%), Positives = 125/220 (56%), Gaps = 1/220 (0%)
Query: 7 TIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARG 66
+ +++E+GV FGH WNP+M YI + HII+L++T L +A ++ D +RG
Sbjct: 5 NLEEMMEAGVHFGHGTRKWNPRMSPYISAKCKGIHIINLTRTARFLSEACDLVFDASSRG 64
Query: 67 GRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNKE 126
+ L V TK++A+D V AA R+ + VN KWLGGM+TNW T + K RDL
Sbjct: 65 KQFLIVGTKNKAADSVARAAIRARCHYVNKKWLGGMLTNWSTTETRLHKFRDLRMEQTAG 124
Query: 127 NQ-GFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIV 185
K++ ++R+ L+ L GI+ M GLPD++ +VD E A++E L IP +
Sbjct: 125 RLARLPKRDAAVVKRQLSHLQTYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGIPTI 184
Query: 186 AVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG 225
++DTN NPDL D IP NDD+ SI L + A +G
Sbjct: 185 CLIDTNCNPDLADISIPANDDAIASIRLILTKLVFAICEG 224
>3i1m_B 30S ribosomal protein S2; ribosome structure, protein-RNA complex,
ribonucleoprotein, ribosomal protein, RNA-binding,
rRNA-binding, antibiotic resistance; 3.19A {Escherichia
coli k-12} PDB: 1vs7_B* 3e1a_B 3e1c_B 1vs5_B 3i1o_B
3i1q_B 3i1s_B 3i1z_B 3i21_B 2qal_B* 1p87_B 2aw7_B 2avy_B
2i2u_B 2i2p_B* 2qan_B* 2qb9_B* 2qbb_B* 2qbd_B 2qbf_B ...
Length = 241
Score = 235 bits (601), Expect = 6e-63
Identities = 111/237 (46%), Positives = 160/237 (67%), Gaps = 1/237 (0%)
Query: 3 LPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDT 62
+ ++R +L++GV FGH+ WNPKM+ +IF RN HII+L +TVPM +AL ++
Sbjct: 1 MATVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKI 60
Query: 63 VARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEEL 122
+R G+ILFV TK AS+ V +AA Q+ VN +WLGGM+TNWKTV QSI++L+DLE
Sbjct: 61 ASRKGKILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQ 120
Query: 123 LNK-ENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLR 181
TKKE L R+ +KL+ +L GI+DMGGLPD +FV+D + E +AI+EA L
Sbjct: 121 SQDGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLG 180
Query: 182 IPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTK 238
IP+ A+VDTNS+PD VD+VIPGNDD+ R++ L+ VA+ +G ++ + ++
Sbjct: 181 IPVFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAVAATVREGRSQDLASQAEESF 237
>2vqe_B 30S ribosomal protein S2; tRNA-binding, rRNA-binding,
metal-binding, zinc-finger, translation; HET: TM2 PAR;
2.5A {Thermus thermophilus} SCOP: c.23.15.1 PDB: 1gix_E*
1hnw_B* 1hnx_B* 1hnz_B* 1hr0_B 1ibk_B* 1ibl_B* 1ibm_B
1j5e_B 1jgo_E* 1jgp_E* 1jgq_E* 1ml5_E* 1n32_B* 1n33_B*
1n34_B 1n36_B 1xmo_B* 1xmq_B* 1xnq_B* ...
Length = 256
Score = 205 bits (522), Expect = 9e-54
Identities = 104/222 (46%), Positives = 149/222 (67%), Gaps = 1/222 (0%)
Query: 5 QFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVA 64
+ T+++LLE+GV FGH WNPK RYI+ ERN HIIDL +T+ L++ + I D
Sbjct: 4 EITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAM 63
Query: 65 RGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEEL-L 123
RGG ILFV TK QA D V A+R+ VN +WLGGM+TN+KT+SQ + +L +LE L
Sbjct: 64 RGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFA 123
Query: 124 NKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIP 183
+ E + KKE++ ++ + ++L++ L G R + LPD +FVVD +E +A++EAR+L IP
Sbjct: 124 SPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIP 183
Query: 184 IVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG 225
++A+ DT+S+PDLVDY+IPGNDD+ RSI L I
Sbjct: 184 VIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQA 225
>2zkq_b 40S ribosomal protein SA; protein-RNA complex, 40S ribosomal
subunit, ribosomal protein/RNA complex; 8.70A {Canis
familiaris}
Length = 295
Score = 189 bits (480), Expect = 8e-49
Identities = 51/280 (18%), Positives = 105/280 (37%), Gaps = 55/280 (19%)
Query: 1 MALPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNN-THIIDLSQTVPMLQKALQVI 59
+ + + + + L +G G N + +ME+YI+ +++ +II+L +T L A + I
Sbjct: 8 LQMKEEDVLKFLAAGTHLGGTN--LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAI 65
Query: 60 SDTVARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDL 119
+ + +++++ V++ A + + ++ G TN
Sbjct: 66 -VAIENPADVSVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQ------------- 111
Query: 120 EELLNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARR 179
I+ P L+ V D + + EA
Sbjct: 112 --------------------------------IQAAFREPRLLVVTDPRADHQPLTEASY 139
Query: 180 LRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG---IARQHSY-MGA 235
+ +P +A+ +T+S VD IP N+ + S+ L ++A + I+R+H + +
Sbjct: 140 VNLPTIALCNTDSPLRYVDIAIPCNNKGAHSVGLMWWMLAREVLRMRGTISREHPWEVMP 199
Query: 236 DTKSAGETVVHSKEGMQLEEDSQSSESSVLDGQEVAVVPE 275
D + KE E + + E G+ A PE
Sbjct: 200 DLYFYRDPEEIEKEEQAAAEKAVTKEEF--QGEWTAPAPE 237
>3bch_A 40S ribosomal protein SA; laminin receptor, P40 ribosomal protein,
acetylation, cytoplasm, phosphorylation, polymorphism;
2.15A {Homo sapiens}
Length = 253
Score = 181 bits (460), Expect = 2e-46
Identities = 38/226 (16%), Positives = 84/226 (37%), Gaps = 49/226 (21%)
Query: 1 MALPQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNN-THIIDLSQTVPMLQKALQVI 59
+ + + + + L +G G N + +ME+YI+ +++ +II+L +T L A + I
Sbjct: 41 LQMKEEDVLKFLAAGTHLGGTN--LDFQMEQYIYKRKSDGIYIINLKRTWEKLLLAARAI 98
Query: 60 SDTVARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDL 119
+ + +++++ V++ A + + ++ G TN +
Sbjct: 99 V-AIENPADVSVISSRNTGQRAVLKFAAATGATPIAGRFTPGTFTNQIQAAFRE------ 151
Query: 120 EELLNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARR 179
P L+ V D + + EA
Sbjct: 152 ---------------------------------------PRLLVVTDPRADHQPLTEASY 172
Query: 180 LRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG 225
+ +P +A+ +T+S VD IP N+ + S+ L ++A +
Sbjct: 173 VNLPTIALCNTDSPLRYVDIAIPCNNKGAHSVGLMWWMLAREVLRM 218
>3jyv_B 40S ribosomal protein S0(A); eukaryotic ribosome, RACK1 protein,
flexible fitting; HET: 2MG H2U M2G OMC OMG YYG PSU 5MC
7MG 5MU 1MA; 8.90A {Thermomyces lanuginosus} PDB: 1s1h_B
Length = 193
Score = 165 bits (418), Expect = 1e-41
Identities = 45/219 (20%), Positives = 82/219 (37%), Gaps = 49/219 (22%)
Query: 8 IRQLLESGVQFGHRNFLWNPKMERYIFCERNN-THIIDLSQTVPMLQKALQVISDTVARG 66
+ LL + G RN E Y+F R + H+I++ +T L A ++I +
Sbjct: 6 AQLLLAANTHLGARN--VQVHQEPYVFNARPDGVHVINVGKTWEKLVLAARII-AAIPNP 62
Query: 67 GRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNKE 126
++ +++++ V++ A + + ++ G TN+ T S
Sbjct: 63 EDVVAISSRTFGQRAVLKFAAHTGATPIAGRFTPGSFTNYITRSFKE------------- 109
Query: 127 NQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVA 186
P L+ V D + AI+EA + IP++A
Sbjct: 110 --------------------------------PRLVIVTDPRSDAQAIKEASYVNIPVIA 137
Query: 187 VVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDG 225
+ D +S + VD IP N+ SI L L+A +
Sbjct: 138 LTDLDSPSEFVDVAIPCNNRGKHSIGLIWYLLAREVLRL 176
>1vi6_A 30S ribosomal protein S2P; structural genomics, ribosome; 1.95A
{Archaeoglobus fulgidus} SCOP: c.23.15.1 PDB: 1vi5_A
Length = 208
Score = 154 bits (391), Expect = 1e-38
Identities = 48/237 (20%), Positives = 93/237 (39%), Gaps = 50/237 (21%)
Query: 7 TIRQLLESGVQFGHRNFLWNPKMERYIFCERNN-THIIDLSQTVPMLQKALQVISDTVAR 65
L +GV G + + M+++IF R + +++D+ + ++ A + +S
Sbjct: 12 PPDDYLAAGVHIGTQIKTGD--MKKFIFKVRQDGLYVLDIRKLDERIRVAAKFLSRYEPS 69
Query: 66 GGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEELLNK 125
+IL VA + A V +K + +++ G +TN
Sbjct: 70 --KILLVAARQYAHKPVQMFSKVVGSDYIVGRFIPGTLTNP------------------- 108
Query: 126 ENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIV 185
+ P+++FV D +K A+ EA + IP+V
Sbjct: 109 --------------------------MLSEYREPEVVFVNDPAIDKQAVSEATAVGIPVV 142
Query: 186 AVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGADTKSAGE 242
A+ D+N++ VD VIP N+ R++A+ L+A + +Y D ++ E
Sbjct: 143 ALCDSNNSSADVDLVIPTNNKGRRALAIVYWLLAREIAKIRGQDFTYSIEDFEAELE 199
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl reductase,
beta-ketoacyl synthase, dehydratase; 4.00A
{Saccharomyces cerevisiae}
Length = 2006
Score = 38.0 bits (88), Expect = 0.002
Identities = 20/124 (16%), Positives = 38/124 (30%), Gaps = 57/124 (45%)
Query: 116 LRDLEELLNKENQGFTKKERL---NIERKRDKLKRAL----DG--IRDMGG--LPDL--M 162
L +L+ + L N+ ++ + DG +R + G +
Sbjct: 432 LVPASDLI---------NKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDC 482
Query: 163 -------------F----VVD------------TNREKLAIQEARRLRIPIVA-VVDTNS 192
F ++D T+R K + +R+ IVA +D N
Sbjct: 483 IIRLPVKWETTTQFKATHILDFGPGGASGLGVLTHRNK----DGTGVRV-IVAGTLDINP 537
Query: 193 NPDL 196
+ D
Sbjct: 538 DDDY 541
Score = 37.2 bits (86), Expect = 0.004
Identities = 58/375 (15%), Positives = 96/375 (25%), Gaps = 176/375 (46%)
Query: 4 PQFTIRQLLESGVQFGHRNFLWNPKMERYIFCERNNTH--IIDL-SQTVPMLQKALQVIS 60
Q+L + +L N+ H L + L K ++I
Sbjct: 76 KVGQFDQVLNLCLTEFENCYLEG-----------NDIHALAAKLLQENDTTLVKTKELIK 124
Query: 61 ---DTVARGGR--------ILFVATKSQASDCVMEAAKRSAQ-YCVNSKWLGGMMTNWKT 108
R LF A + +AQ + GG
Sbjct: 125 NYITARIMAKRPFDKKSNSALFRA-----------VGEGNAQLVAI----FGG------- 162
Query: 109 VSQS-----IQKLRDL--------EELLNKENQGFTKKERLN----IERKRDKL-KRALD 150
Q ++LRDL +L+ E L+ +K+ + L+
Sbjct: 163 --QGNTDDYFEELRDLYQTYHVLVGDLIK------FSAETLSELIRTTLDAEKVFTQGLN 214
Query: 151 GIRDMGGL------PDLMFVVDTNREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVI--- 201
I + L PD +++ I P++ V+ L YV+
Sbjct: 215 -I--LEWLENPSNTPDKDYLLSI-----PIS------CPLIGVI------QLAHYVVTAK 254
Query: 202 -----PGNDDSSRSIALFCD-----------LVASAAI---D------------------ 224
PG LV + AI D
Sbjct: 255 LLGFTPGE---------LRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 225 -GIARQHSY--------MGADTKSAGETV------VH--SKEGMQ---------LEEDSQ 258
G+ +Y + D+ E V + ++E +Q L Q
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQ 365
Query: 259 SSESSVLDGQEVAVV 273
S V +G + VV
Sbjct: 366 VEISLV-NGAKNLVV 379
Score = 35.7 bits (82), Expect = 0.012
Identities = 33/239 (13%), Positives = 70/239 (29%), Gaps = 101/239 (42%)
Query: 53 QKALQVISDTVARGGRILF-VATKSQASDCVMEAAKRSA------QYCVNSKWLGG---- 101
+KA+ +LF + + EA ++ + +
Sbjct: 297 RKAI-----------TVLFFIGVRCY------EAYPNTSLPPSILEDSLE----NNEGVP 335
Query: 102 --MMTNWKTVSQSIQKLR--DLEELLNKENQGFTKKERLNIERKRDKLKRAL-DGIRDM- 155
M+ SI L +++ +NK N +++ I +L +G +++
Sbjct: 336 SPML--------SISNLTQEQVQDYVNKTNSHLPAGKQVEI---------SLVNGAKNLV 378
Query: 156 -GGLP-DLM-FV-----------VDTNR-----EKLAIQEARRLRIPIVAVVDTNSNP-- 194
G P L +D +R KL R L P+ + P
Sbjct: 379 VSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS-NRFL--PVAS-------PFH 428
Query: 195 -----DLVDYVIPGNDDSSRSIAL-FCDLVASAAIDGIARQHSYMGADTKSAGETVVHS 247
D + D +++ D+ I ++ G+D + ++
Sbjct: 429 SHLLVPASDLIN--KDLVKNNVSFNAKDI-------QIPVYDTFDGSDLRVLSGSISER 478
Score = 29.9 bits (67), Expect = 0.67
Identities = 16/100 (16%), Positives = 27/100 (27%), Gaps = 36/100 (36%)
Query: 1 MALPQF-T-----IRQLLESGVQFGHRNFLWNPKMERYIFCERNN---------THIID- 44
+ +P + T +R L S ++ I THI+D
Sbjct: 455 IQIPVYDTFDGSDLRVLSGSIS----------ERIVDCIIRLPVKWETTTQFKATHILDF 504
Query: 45 ----LSQTVPMLQKALQVISDTVARGGRILFVATKSQASD 80
S + + D G R++ T D
Sbjct: 505 GPGGASGLGVLTHR----NKD--GTGVRVIVAGTLDINPD 538
>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 = 31.9 bits (71), Expect = 0.14
Identities = 10/38 (26%), Positives = 17/38 (44%), Gaps = 10/38 (26%)
Query: 47 QTVPMLQKALQVISDTVARGGRILFVATKSQASDCVME 84
Q + LQ +L++ +D A +A K+ ME
Sbjct: 20 QALKKLQASLKLYADDSAPA-----LAIKA-----TME 47
Score = 29.2 bits (64), Expect = 1.1
Identities = 9/45 (20%), Positives = 19/45 (42%), Gaps = 21/45 (46%)
Query: 170 EKLAIQEAR-RLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIAL 213
EK A+++ + L++ Y DDS+ ++A+
Sbjct: 18 EKQALKKLQASLKL----------------YA----DDSAPALAI 42
>2c82_A 1-deoxy-D-xylulose 5-phosphate reductoisomerase; RV2870C, DOXP/MEP
pathway, oxidoreductase, isoprene biosynthesis,
metal-binding; 1.9A {Mycobacterium tuberculosis} PDB:
2jd1_A* 2jcv_A* 2jcz_A* 2jd2_A 2jcx_A* 2jcy_A 2jd0_A*
Length = 413
Score = 31.6 bits (71), Expect = 0.21
Identities = 14/84 (16%), Positives = 33/84 (39%), Gaps = 1/84 (1%)
Query: 168 NREKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLVASAAIDGIA 227
+++ + + +AV D ++ + D G+D ++R + V A+ G
Sbjct: 49 AHLDTLLRQRAQTGVTNIAVADEHAAQRVGDIPYHGSDAATRLVEQTEADVVLNALVGAL 108
Query: 228 RQHSYMGADTKSAGETVVHSKEGM 251
+ A K+ + +KE +
Sbjct: 109 GLRPTLAA-LKTGARLALANKESL 131
>2x8j_A Intracellular subtilisin protease; hydrolase, serine protease,
intracellular proteinase regulat; HET: CSX 1PE; 1.56A
{Bacillus clausii}
Length = 327
Score = 30.1 bits (67), Expect = 0.50
Identities = 9/25 (36%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 184 IVAVVDT---NSNPDLVDYVIPGND 205
I+ V+DT +PDL + +I G +
Sbjct: 44 IIGVIDTGCQVDHPDLAERIIGGVN 68
>2yva_A DNAA initiator-associating protein DIAA; intermolecular disulfide
bonding, putative phosphosugar binding protein, DNAA
binding protein; 1.85A {Escherichia coli}
Length = 196
Score = 30.1 bits (67), Expect = 0.54
Identities = 14/101 (13%), Positives = 31/101 (30%), Gaps = 8/101 (7%)
Query: 29 MERYI---FCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEA 85
M+ I F E T I + +A + ++ G +IL + A++ A
Sbjct: 1 MQERIKACFTESIQTQIAAAEALPDAISRAAMTLVQSLLNGNKILCCGNGTSAANAQHFA 60
Query: 86 AK-----RSAQYCVNSKWLGGMMTNWKTVSQSIQKLRDLEE 121
A + + + + L ++ +
Sbjct: 61 ASMINRFETERPSLPAIALNTDNVVLTAIANDRLHDEVYAK 101
>2i2w_A Phosphoheptose isomerase; lipopolysaccharide biosynthesis; 1.95A
{Escherichia coli} PDB: 2i22_A 1x94_A
Length = 212
Score = 29.8 bits (66), Expect = 0.73
Identities = 10/57 (17%), Positives = 24/57 (42%)
Query: 42 IIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKW 98
+ + +Q+A +++D+ GG++L D + A + + +Y N
Sbjct: 40 FLKDDANIHAIQRAAVLLADSFKAGGKVLSCGNGGSHCDAMHFAEELTGRYRENRPG 96
>1nri_A Hypothetical protein HI0754; structural genomics, PSI, protein
structure initiative, midwest center for structural
genomics, MCSG; 1.90A {Haemophilus influenzae} SCOP:
c.80.1.3
Length = 306
Score = 29.3 bits (65), Expect = 0.94
Identities = 10/59 (16%), Positives = 32/59 (54%)
Query: 45 LSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMM 103
+ +P + A++ I +GGR++++ + V++A++ + V+++ + G++
Sbjct: 50 IESCLPQISLAVEQIVQAFQQGGRLIYIGAGTSGRLGVLDASECPPTFGVSTEMVKGII 108
>2gov_A P22HBP, heme-binding protein 1; structural genomics, protein
structure initiative, PSI, center for eukaryotic
structural genomics, CESG; NMR {Mus musculus} SCOP:
d.60.1.4 PDB: 2hva_A
Length = 195
Score = 28.6 bits (63), Expect = 1.7
Identities = 7/103 (6%), Positives = 23/103 (22%), Gaps = 1/103 (0%)
Query: 32 YIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSAQ 91
+ N + + TVP+ ++ + ++ F + +
Sbjct: 68 MKYVGGTNDKGVGMGMTVPVSFAVFPNEDGSLQKKLKVWFRIPNQFQGSPPAPSDESVKI 127
Query: 92 YCVNSKWLGGMM-TNWKTVSQSIQKLRDLEELLNKENQGFTKK 133
+ + + + L L +
Sbjct: 128 EEREGITVYSTQFGGYAKEADYVAHATQLRTTLEGTPATYQGD 170
>2xbl_A Phosphoheptose isomerase; capsule; HET: M7P PGE PG4; 1.62A
{Burkholderia pseudomallei} PDB: 2x3y_A
Length = 198
Score = 28.1 bits (62), Expect = 2.2
Identities = 21/167 (12%), Positives = 52/167 (31%), Gaps = 32/167 (19%)
Query: 42 IIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAK-----RSAQYCVNS 96
++ + + ++K ++A+GG++L A+D A + + + +
Sbjct: 24 MLADERLLATVRKVADACIASIAQGGKVLLAGNGGSAADAQHIAGEFVSRFAFDRPGLPA 83
Query: 97 KWLGGMMTNWKTVSQSIQKLRDLEELLNKENQGFTKKERLNIERKRDKLKRALDGIRDMG 156
L + + E+L +++ Q + + I G G
Sbjct: 84 VALTTDTSILTAIGND----YGYEKLFSRQVQALGNEGDVLI------------GYSTSG 127
Query: 157 GLPDLMFVVDTNREKLAIQEARRLRIPIVAVVDTNSNP--DLVDYVI 201
+ A +EA+ + V +L D ++
Sbjct: 128 K---------SPNILAAFREAKAKGMTCVGFTGNRGGEMRELCDLLL 165
>1x92_A APC5045, phosphoheptose isomerase; midwest centre for structural
genomics, SIS domain, A/B protein, lipopolysaccharide
biosynthesis, PSI; HET: M7P; 2.30A {Pseudomonas
aeruginosa} SCOP: c.80.1.3 PDB: 3bjz_A
Length = 199
Score = 27.8 bits (61), Expect = 2.5
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 3/59 (5%)
Query: 26 NPKMERYI---FCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDC 81
+ M+ I F T L P +++A V+ + + G+IL A D
Sbjct: 2 HMDMQHRIRQLFQASIETKQQALEVLPPYIEQASLVMVNALLNEGKILSCGNGGSAGDA 60
>3igf_A ALL4481 protein; two-domained protein consisting of the N-terminal
alpha-beta fold and the C-terminal all beta domain.,
structural genomics, PSI-2; 2.00A {Nostoc SP}
Length = 374
Score = 28.1 bits (62), Expect = 2.5
Identities = 20/154 (12%), Positives = 42/154 (27%), Gaps = 12/154 (7%)
Query: 50 PMLQKALQVISDTVARGG-RILFVATKSQASDCVMEAAKRSAQYCVNSKWLGGMMTNWKT 108
AL I + A G + A M S + V + ++
Sbjct: 107 MDSALALNAIREYDASGKYDTIVYDGTGDAFTLRMLGLPESLSWYVRRFRQLFVNSDLGK 166
Query: 109 VSQSIQKLRDLEELLNKENQGFTKKERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTN 168
++ L N + + + L + + + D + + T
Sbjct: 167 TIAESPLIQPLISSFFNVNWTADNFAQP-TNQVNNFLDKGKEALAD---PKRVAAFLVTT 222
Query: 169 REKLAIQEARRLR-------IPIVAVVDTNSNPD 195
+ L + R L + I V+ +S +
Sbjct: 223 ADPLEVVSVRYLWGSAQQIGLTIGGVIQVSSQTE 256
>1uc8_A LYSX, lysine biosynthesis enzyme; alpha-aminoadipate pathway, riken
structural genomics/proteomics initiative, RSGI,
structural genomics; 2.00A {Thermus thermophilus} SCOP:
c.30.1.6 d.142.1.7 PDB: 1uc9_A*
Length = 280
Score = 27.9 bits (61), Expect = 2.6
Identities = 16/100 (16%), Positives = 31/100 (31%), Gaps = 13/100 (13%)
Query: 161 LMFVVDTNR--EKLAIQEARRLRIPIVAVVDTNSNPDLVDYVIPGNDDSSRSIALFCDLV 218
L + D R E++ + A L +P V + + + V
Sbjct: 2 LAILYDRIRPDERMLFERAEALGLPYKKV---YVPALPMV-LGERPKELEGVTVALERCV 57
Query: 219 ASAAIDGIARQHSYMGADTKSAGETVVHSKEGMQLEEDSQ 258
+ + AR + +G VV+ E ++ D
Sbjct: 58 SQSRGLAAARYLTALGI-------PVVNRPEVIEACGDKW 90
>2hn1_A CORA, magnesium and cobalt transporter; integral membrane protein
fragment, metal transporter protein, divalent cations;
2.90A {Archaeoglobus fulgidus}
Length = 266
Score = 27.8 bits (61), Expect = 3.1
Identities = 17/135 (12%), Positives = 45/135 (33%), Gaps = 11/135 (8%)
Query: 27 PKMERYIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAA 86
K+E Y I+ ++T+ + Q +S + + F + D +
Sbjct: 105 VKIEDYDDHLFLVLKILLYNETLEIDQ-----LSLVLKKNLVATFEEREYWILDSIRSRL 159
Query: 87 KRSAQYCVNSKW------LGGMMTNWKTVSQSIQKLRDLEELLNKENQGFTKKERLNIER 140
K + + L ++ ++ I ++ E + +++R
Sbjct: 160 KSGGRMRKLAGDYLAYTILDAVVDSYFEALLKISDEIEVLEDEVVSGDSTLIGKIHSLKR 219
Query: 141 KRDKLKRALDGIRDM 155
+ + A+ +RD+
Sbjct: 220 EILAFRNAVWPLRDV 234
>1qf8_A Casein kinase II; casein kinase beta subunit (1-182), Ser/Thr
protein kinase, Zn finger, transferase; HET: MSE; 1.74A
{Homo sapiens} SCOP: g.41.4.1 PDB: 3eed_A 1rqf_A
Length = 182
Score = 27.5 bits (61), Expect = 3.6
Identities = 19/87 (21%), Positives = 38/87 (43%), Gaps = 15/87 (17%)
Query: 32 YIFCERNNTHIID------LSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEA 85
FCE + +I D L++ VP ++AL +I D + SD + +A
Sbjct: 20 EFFCEVDEDYIQDKFNLTGLNEQVPHYRQALDMILDLEP----DEELEDNPNQSDLIEQA 75
Query: 86 AKR-----SAQYCVNSKWLGGMMTNWK 107
A+ A+Y + ++ + M+ ++
Sbjct: 76 AEMLYGLIHARYILTNRGIAQMLEKYQ 102
>3ovc_A Hygromycin-B 4-O-kinase; aminoglycoside phosphotransferase,
structural genomics, PSI- protein structure initiative;
HET: HY0 PE4; 1.95A {Escherichia coli}
Length = 362
Score = 27.5 bits (60), Expect = 3.9
Identities = 22/144 (15%), Positives = 39/144 (27%), Gaps = 27/144 (18%)
Query: 124 NKENQGFT--KKERLNIERKRDKLKRALDGIRDM----GGLPDLMFVVDTN--------- 168
+EN F KK L L D + D+ G F D
Sbjct: 13 GRENLYFQGMKKPELTATSVEKFLIEKFDSVSDLMQLSEGEESRAFSFDVGGRGYVLRVN 72
Query: 169 -------REKLAIQEARRLRIPIVAVVDTNSNPDLVDYVI----PGNDDSSRSIALFCDL 217
+++ + +PI V+D + + Y I G +
Sbjct: 73 SCADGFYKDRYVYRHFASAALPIPEVLDIGEFSESLTYCISRRAQGVTLQDLPETELPAV 132
Query: 218 VASAAIDGIARQHSYMGADTKSAG 241
+ A + + + + T G
Sbjct: 133 LQPVA-EAMDAIAAADLSQTSGFG 155
>1vyn_A Argonaute2; nucleic acid binding, RNA interference; NMR {Drosophila
melanogaster} SCOP: b.34.14.1
Length = 143
Score = 26.8 bits (59), Expect = 5.4
Identities = 9/35 (25%), Positives = 12/35 (34%), Gaps = 4/35 (11%)
Query: 119 LEELLNKENQGFTKKERLNIERKRDKLKRALDGIR 153
LE K N++ R L+ L GI
Sbjct: 11 LERFSLKAKI----NNTTNLDYSRRFLEPFLRGIN 41
>1pvg_A DNA topoisomerase II; GHKL ATPase domain; HET: DNA ANP; 1.80A
{Saccharomyces cerevisiae} SCOP: d.14.1.3 d.122.1.2 PDB:
1qzr_A*
Length = 418
Score = 26.7 bits (58), Expect = 6.4
Identities = 7/19 (36%), Positives = 9/19 (47%)
Query: 102 MMTNWKTVSQSIQKLRDLE 120
M T + S QK+ LE
Sbjct: 6 MSTEPVSASDKYQKISQLE 24
>1e1o_A Lysyl-tRNA synthetase; ligase, aminoacyl-tRNA synthetase, protein
biosynthesis; HET: LYS; 2.12A {Escherichia coli} SCOP:
b.40.4.1 d.104.1.1 PDB: 1e1t_A* 1e22_A* 1e24_A* 1lyl_A
1bbu_A* 1bbw_A 1krs_A 1krt_A
Length = 504
Score = 26.5 bits (58), Expect = 6.6
Identities = 10/83 (12%), Positives = 30/83 (36%), Gaps = 3/83 (3%)
Query: 109 VSQSIQKLRDLEELLNKENQGFTKKE-RLN--IERKRDKLKRALDGIRDMGGLPDLMFVV 165
+ +L + + + + E + + +R K + ++D+GG L
Sbjct: 41 RDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMGKASFVTLQDVGGRIQLYVAR 100
Query: 166 DTNREKLAIQEARRLRIPIVAVV 188
D+ E + + ++ + +
Sbjct: 101 DSLPEGVYNDQFKKWDLGDIIGA 123
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage
T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Length = 290
Score = 26.5 bits (58), Expect = 6.9
Identities = 7/43 (16%), Positives = 19/43 (44%)
Query: 107 KTVSQSIQKLRDLEELLNKENQGFTKKERLNIERKRDKLKRAL 149
K I++ ++ +++++ +K N+ + L R L
Sbjct: 214 KRGYNIIREFGNVLDIIDQLPLPGKQKYIQNLNASEELLFRNL 256
>3lls_A 3-ketoacyl-(acyl-carrier-protein) reductase; niaid, emerald
biostructures, UW, SBRI, oxidoreductase, structural
genomics; 2.40A {Mycobacterium tuberculosis}
Length = 475
Score = 26.4 bits (58), Expect = 7.6
Identities = 11/59 (18%), Positives = 19/59 (32%), Gaps = 4/59 (6%)
Query: 32 YIFCERNNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATKSQASDCVMEAAKRSA 90
+F T L L+ + R GR++ V +A+ E + A
Sbjct: 107 LVFDATGITEPAGLKGLHEFFTPVLR----NLGRCGRVVVVGGTPEAAASTNERIAQRA 161
>1g0h_A Inositol monophosphatase; homodimer, complexed with Ca2+ and I-1-P,
hydrolase; HET: IPD; 2.30A {Methanocaldococcus
jannaschii} SCOP: e.7.1.1 PDB: 1dk4_A* 1g0i_A*
Length = 252
Score = 26.3 bits (57), Expect = 8.1
Identities = 21/114 (18%), Positives = 41/114 (35%), Gaps = 16/114 (14%)
Query: 133 KERLNIERKRDKLKRALDGIRDMGGLPDLMFVVDTNREKLAIQEARRLRIPIVA----VV 188
KE L ++DK + D + D E +A++ + L + IV+ V+
Sbjct: 16 KEILPYFGRKDKSY-----VVGTSPSGDETEIFDKISEDIALKYLKSLNVNIVSEELGVI 70
Query: 189 DTNSNPD-LVDYV------IPGNDDSSRSIALFCDLVASAAIDGIARQHSYMGA 235
D +S ++D + I G + +F + + S+ A
Sbjct: 71 DNSSEWTVVIDPIDGSFNFINGIPFFAFCFGVFKNNEPYYGLTYEFLTKSFYEA 124
>1ky9_A Protease DO, DEGP, HTRA; protein quality control, serine protease,
trypsin, chaperone, PDZ, ATP-independent,
temperature-regulated, periplasm; 2.80A {Escherichia
coli} SCOP: b.36.1.4 b.47.1.1 PDB: 3cs0_A 2zle_A
Length = 448
Score = 26.0 bits (56), Expect = 8.7
Identities = 5/38 (13%), Positives = 18/38 (47%)
Query: 38 NNTHIIDLSQTVPMLQKALQVISDTVARGGRILFVATK 75
N + ++++ +L V++ + RG +++ +
Sbjct: 411 NQQAVKNIAELRKVLDSKPSVLALNIQRGDSTIYLLMQ 448
>2woo_A ATPase GET3; tail-anchored, membrane protein, targeting factor,
endoplasmic reticulum, TRC40, ATP-binding, golgi
apparatus; 3.01A {Schizosaccharomyces pombe}
Length = 329
Score = 26.3 bits (57), Expect = 8.7
Identities = 12/62 (19%), Positives = 23/62 (37%), Gaps = 8/62 (12%)
Query: 135 RLNIERKRDKLKRALDGIRDMGGLPDL-MFVVDTNREKLAIQEARRLR-------IPIVA 186
++ K + ++ + + PDL FV E L++ E R+ I
Sbjct: 195 EQDLFGKMESMRANISEVNKQFKNPDLTTFVCVCISEFLSLYETERMIQELTSYEIDTHN 254
Query: 187 VV 188
+V
Sbjct: 255 IV 256
Database: pdb70
Posted date: Jan 26, 2011 11:21 AM
Number of letters in database: 5,693,230
Number of sequences in database: 24,244
Lambda K H
0.317 0.132 0.372
Gapped
Lambda K H
0.267 0.0483 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,281,864
Number of extensions: 102504
Number of successful extensions: 476
Number of sequences better than 10.0: 1
Number of HSP's gapped: 459
Number of HSP's successfully gapped: 44
Length of query: 278
Length of database: 5,693,230
Length adjustment: 91
Effective length of query: 187
Effective length of database: 3,487,026
Effective search space: 652073862
Effective search space used: 652073862
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 56 (25.9 bits)