RPS-BLAST 2.2.22 [Sep-27-2009]
Database: pdb70
24,244 sequences; 5,693,230 total letters
Searching..................................................done
Query= gi|254780760|ref|YP_003065173.1| hypothetical protein
CLIBASIA_03235 [Candidatus Liberibacter asiaticus str. psy62]
(330 letters)
>2eqa_A Hypothetical protein ST1526; YRDC/RIBB fold, YRDC domain, SUA5
domain, structural genomics, NPPSFA; HET: AMP; 1.80A
{Sulfolobus tokodaii}
Length = 352
Score = 188 bits (479), Expect = 1e-48
Identities = 82/328 (25%), Positives = 136/328 (41%), Gaps = 15/328 (4%)
Query: 8 DSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDI 67
+ + ++ A + + G +A PTETVYGL ++ + A ++++ K RP NPLI H++D
Sbjct: 13 EIDKIKIAADVIRNGGTVAFPTETVYGLGANAFDGNACLKIFQAKNRPVDNPLIVHIADF 72
Query: 68 SMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCGFTKKL 127
+ + + A P + + + ++ A +L
Sbjct: 73 NQLFEVAKDIPDKVLEIAQIVWPGPLTFVLKKTERVPKEVTAGLDTVAVRMPAHPIALQL 132
Query: 128 IETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNVQCEK 187
I G P+A PSAN + + S T + ++ + + +IIDGG + G+ESTI+NV E
Sbjct: 133 IRESGVPIAAPSANLATRPSPTKAEDVI-VDLNGRVDVIIDGGHTFFGVESTIINVTVEP 191
Query: 188 KVRILRPGGLEIETLKRAI----SVELEYCVDETSTPQSPGMLKSHYAPRSQVRLRAIHV 243
+LRPG IE LK+ E E +PGM HYAP +++ L
Sbjct: 192 P-VLLRPGPFTIEELKKLFGEIVIPEFAQGKKEAEIALAPGMKYKHYAPNTRLLLVENRN 250
Query: 244 NPREALIRFGN---------VPIKNIENAIISLNLSKTGKLKEAAFNLFNYMKIADDSGA 294
++ + + + + L L E A NLF+ + D
Sbjct: 251 IFKDVVSLLSKKYKVALLIPKELSKEFEGLQQIILGSDENLYEVARNLFDSFRELDKLNV 310
Query: 295 SSIAFSSIPNHGLGIAINNRLERAAAPR 322
P G+G AI NR +A+
Sbjct: 311 DLGIMIGFPERGIGFAIMNRARKASGFS 338
>3l7v_A Putative uncharacterized protein SMU.1377C; transcription; 2.26A
{Streptococcus mutans}
Length = 295
Score = 155 bits (393), Expect = 1e-38
Identities = 42/244 (17%), Positives = 81/244 (33%), Gaps = 48/244 (19%)
Query: 8 DSNALRKACEFLDA-GLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSD 66
D N ++ E + G I PT+ Y + + + R +E KKR P +
Sbjct: 42 DGNLSQEGFEIVKGEGGVIVCPTKVGYIIMTS--DKKGLERKFEAKKRNRNKPGVVLCGS 99
Query: 67 ISMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHP---------------LSTAN 111
+ ++ A + P + W + L L + + + +
Sbjct: 100 MEELRALAQLTPEIDAFYQKHWDEDILLGCILPWKAEAYEKLKAYGDGREELMTDIRGTS 159
Query: 112 LKTACFRVP-CGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGG 170
F V K++ E G + SAN SG+ + V+ I I + L+I+
Sbjct: 160 CFVIKFGVAGEQIAKEMWEKEGRMVYASSANPSGKGNRGKVEGIG-ERIESMVDLVIEAD 218
Query: 171 --------------ISKIGLESTIVNV-------------QCEKKVRILRPGGLEIETLK 203
+ G+ ++V+ E ++R GL+I+ +
Sbjct: 219 DYVASIQPDKTIETRYEQGVMVSMVDKDGKLIPQQGADSRSVEPCPVVIRK-GLDIDKIM 277
Query: 204 RAIS 207
+S
Sbjct: 278 MHLS 281
>1jcu_A Conserved protein MTH1692; mixed alpha-beta structure, structural
genomics; NMR {Methanothermobacterthermautotrophicus}
SCOP: d.115.1.1
Length = 208
Score = 136 bits (343), Expect = 6e-33
Identities = 53/204 (25%), Positives = 92/204 (45%), Gaps = 10/204 (4%)
Query: 1 MQIMSITDSN----ALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPA 56
M I IT N L +A ++ G + PT+T+YGL V++ + A+RRL+ +K R
Sbjct: 1 MLIRKITRKNPSPDVLEEAISVMEGGGIVIYPTDTIYGLGVNALDEDAVRRLFRVKGRSP 60
Query: 57 MNPLICHVSDISMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTAC 116
P+ VS + + + + ++ L + PGP T+VL+ I + T
Sbjct: 61 HKPVSICVSCVDEIPRFSRPSGDAMELMERILPGPYTVVLE--RNELIPDVITGGSSRVG 118
Query: 117 FRVPCGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGL 176
RVP + I P+ SAN SG+ ++ I+ + L++D G
Sbjct: 119 IRVPDDEICRRIAAR-FPVTATSANISGKPPSPRLEEIV--RDLDAVDLVLDAGDCLDME 175
Query: 177 ESTIVNVQCEKKVRILRPGGLEIE 200
ST++++ R+LR G ++
Sbjct: 176 PSTVIDL-TVNPPRVLRRGKGPLD 198
>1k7j_A Protein YCIO, protein TF1; structural genomics, X-RAY
crystallography, putative translation factor, PSI,
protein structure initiative; 1.40A {Escherichia coli}
SCOP: d.115.1.1 PDB: 1kk9_A
Length = 206
Score = 129 bits (324), Expect = 1e-30
Identities = 46/204 (22%), Positives = 84/204 (41%), Gaps = 8/204 (3%)
Query: 2 QIMSITDSN----ALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAM 57
Q I N + +A E + G I PT++ Y L + A+ R+ I++ P
Sbjct: 3 QFFYIHPDNPQQRLINQAVEIVRKGGVIVYPTDSGYALGCKIEDKNAMERICRIRQLPDG 62
Query: 58 NPLICHVSDISMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACF 117
+ D+S + ++ VD ++ L K PG T +L + L KT
Sbjct: 63 HNFTLMCRDLSELSTYSFVDNVAFRLMKNNTPGNYTFILK-GTKEVPRRLLQEKRKTIGM 121
Query: 118 RVP-CGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGL 176
RVP + L+E G P+ S G + + + K++ LII GG
Sbjct: 122 RVPSNPIAQALLEALGEPMLSTSLMLPGSEFTESDPEEIKDRLEKQVDLIIHGGYLG-QK 180
Query: 177 ESTIVNVQCEKKVRILRPGGLEIE 200
+T++++ + ++R G +++
Sbjct: 181 PTTVIDL-TDDTPVVVREGVGDVK 203
>1hru_A YRDC gene product; protein folding, structural genomics, RNA, SUA5,
PSI, protein structure initiative, midwest center for
structural genomics; 2.00A {Escherichia coli} SCOP:
d.115.1.1
Length = 188
Score = 121 bits (304), Expect = 3e-28
Identities = 48/187 (25%), Positives = 75/187 (40%), Gaps = 8/187 (4%)
Query: 8 DSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDI 67
+A+ A + L+ IA PTE V+G+ D + TA+ RL E+K+RP LI ++
Sbjct: 6 QRDAIAAAIDVLNEERVIAYPTEAVFGVGCDPDSETAVMRLLELKQRPVDKGLILIAANY 65
Query: 68 SMVKKHASVDPLS---LHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVP-CGF 123
+K + L+ WPGP+T V +T T + RV
Sbjct: 66 EQLKPYIDDTMLTDVQRETIFSRWPGPVTFVFPAPAT--TPRWLTGRFDSLAVRVTDHPL 123
Query: 124 TKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNV 183
L + YG PL SAN SG V + + P++ ++ S I +
Sbjct: 124 VVALCQAYGKPLVSTSANLSGLPPCRTVDEVR-AQFGAAFPVVPGETGGRLN-PSEIRDA 181
Query: 184 QCEKKVR 190
+ R
Sbjct: 182 LTGELFR 188
>2yv4_A Hypothetical protein PH0435; alpha and beta proteins (A+B), SUA5
domain, structural genomics, NPPSFA; 2.00A {Pyrococcus
horikoshii OT3}
Length = 105
Score = 67.2 bits (164), Expect = 4e-12
Identities = 22/101 (21%), Positives = 41/101 (40%), Gaps = 9/101 (8%)
Query: 231 APRSQVRL----RAIHVNPREALIRFGNVPIKNI-----ENAIISLNLSKTGKLKEAAFN 281
AP ++V + R L++ K + E+ ++E A N
Sbjct: 1 APNAEVIVVEGPREKVKGKITELVKELKERGKKVGVIGSESYNADEFFFLGSSVEEVAKN 60
Query: 282 LFNYMKIADDSGASSIAFSSIPNHGLGIAINNRLERAAAPR 322
LF ++ D +G + + GLG+A+ NRL +A+ +
Sbjct: 61 LFKALRYMDKAGVDVVIAEGVEERGLGLAVMNRLRKASGYK 101
>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 = 63.8 bits (155), Expect = 5e-11
Identities = 86/439 (19%), Positives = 135/439 (30%), Gaps = 183/439 (41%)
Query: 12 LRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVK 71
L++ +F LP PTE G A D PT L + +VS
Sbjct: 33 LQE--QFN-KILPE--PTE---GFAADDE-PTTPAELV------GK--FLGYVSS----- 70
Query: 72 KHASVDPLSLHLAKLFWPGPLTLVL---------DLLSTTDIHPLSTANLKTACFRVPCG 122
V+P G VL L DIH L A L
Sbjct: 71 ---LVEPSK--------VGQFDQVLNLCLTEFENCYLEGNDIHAL-AAKL-LQENDTTLV 117
Query: 123 FTKKLIETY-------------GHPLAIPSANRSGQISIT-------NVKHILSSSIC-- 160
TK+LI+ Y A+ A G + N
Sbjct: 118 KTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDD------YFE 171
Query: 161 --KEI-----PLIIDGGISKIG--LESTIVNVQCEKKVRILRPGGLEIET-LKRAISV-E 209
+++ L+ D I L I +K + GL I L+ + +
Sbjct: 172 ELRDLYQTYHVLVGDL-IKFSAETLSELIRTTLDAEK---VFTQGLNILEWLENPSNTPD 227
Query: 210 LEYCVDETSTPQS-P--GMLK-SHYA---------PRSQVRLR---------------AI 241
+Y + S P S P G+++ +HY P ++R AI
Sbjct: 228 KDYLL---SIPISCPLIGVIQLAHYVVTAKLLGFTPG-ELRSYLKGATGHSQGLVTAVAI 283
Query: 242 ---------HVNPREAL-IRF--G----------NVPIKNIENAI----------ISL-N 268
V+ R+A+ + F G ++P +E+++ +S+ N
Sbjct: 284 AETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN 343
Query: 269 LSKTGKLKE--AAFN------------LFNYMKIADDSGASSIAFSSIPN--HGLGIAIN 312
L++ ++++ N L N GA ++ S P +GL N
Sbjct: 344 LTQE-QVQDYVNKTNSHLPAGKQVEISLVN--------GAKNLVVSGPPQSLYGL----N 390
Query: 313 NRLERAAAPRNQSQ-RIVP 330
L +A AP Q RI P
Sbjct: 391 LTLRKAKAPSGLDQSRI-P 408
Score = 48.4 bits (115), Expect = 2e-06
Identities = 43/263 (16%), Positives = 83/263 (31%), Gaps = 111/263 (42%)
Query: 4 M-SITDSNAL-RKACE-FLD---AGLP----IAI-------------PTETVYGLAVDSR 40
M SI++ L ++ + +++ + LP + I P +++YGL + R
Sbjct: 338 MLSISN---LTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLR 394
Query: 41 NPTA--------I----RRLYEIKKR--PAMNPLICHVSDISMVKKHASVDPLSLHLAKL 86
A I R+L + R P +P H S L
Sbjct: 395 KAKAPSGLDQSRIPFSERKL-KFSNRFLPVASPF--H----------------SHLLVP- 434
Query: 87 FWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCGFTKKLIETY-GHPLAIPSANRSGQ 145
L+ L ++ + +++ + +T+ G L R
Sbjct: 435 ----ASDLINKDLVKNNV-SFNAKDIQIPVY-----------DTFDGSDL------RVLS 472
Query: 146 ISITNVKHILSSSICKEIPL------------IID---GGISKIGLESTIVNVQCE-KKV 189
SI+ + I + P+ I+D GG S +G + + + V
Sbjct: 473 GSIS---ERIVDCIIRL-PVKWETTTQFKATHILDFGPGGASGLG---VLTHRNKDGTGV 525
Query: 190 RILRPGGLEIETLKRAISVELEY 212
R++ G TL + +
Sbjct: 526 RVIVAG-----TLDINPDDDYGF 543
Score = 37.6 bits (87), Expect = 0.004
Identities = 35/182 (19%), Positives = 61/182 (33%), Gaps = 42/182 (23%)
Query: 74 ASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCGFTKKLIETYGH 133
S PL+L G L VL L+ T S L+ F K L E
Sbjct: 4 YSTRPLTLSH------GSLEHVL-LVPTASFFIASQ--LQEQ-------FNKILPE---- 43
Query: 134 PLAIPSANRSGQISITNVKHILSSSICKEIPLIID-GGISKIGLESTIVNV---QCEKKV 189
P+ + T ++ + + SK+G ++N+ + E
Sbjct: 44 ----PTEGFAADDEPTTPAELVGKFLG----YVSSLVEPSKVGQFDQVLNLCLTEFEN-- 93
Query: 190 RILRPGGLEIETLKRAISVELEYCVDETSTPQSPGMLKSHYAPRSQVRLRAIHVNPREAL 249
L G +I L + E ++T+ ++ ++K++ R + R AL
Sbjct: 94 CYLE--GNDIHALAAKLLQE-----NDTTLVKTKELIKNYITARIMAK-RPFDKKSNSAL 145
Query: 250 IR 251
R
Sbjct: 146 FR 147
>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 = 36.1 bits (82), Expect = 0.011
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 7/28 (25%)
Query: 274 KLKEAAFNLFNYMKIADDSGASSIAFSS 301
KL +A+ L+ ADDS A ++A +
Sbjct: 24 KL-QASLKLY-----ADDS-APALAIKA 44
Score = 27.3 bits (59), Expect = 4.6
Identities = 10/50 (20%), Positives = 14/50 (28%), Gaps = 27/50 (54%)
Query: 8 DSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAM 57
+ AL+K L A L +LY PA+
Sbjct: 18 EKQALKK----LQASL-----------------------KLYADDSAPAL 40
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase,
tRNA processing, hydrolase,translation; 1.60A
{Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Length = 375
Score = 29.5 bits (65), Expect = 0.93
Identities = 17/89 (19%), Positives = 26/89 (29%), Gaps = 21/89 (23%)
Query: 1 MQIMSITDSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPL 60
M IT +AL CE + A IA+ TE P
Sbjct: 1 MNYQMITTDDALASLCEAVRAFPAIALDTEF------VRTRT--------------YYPQ 40
Query: 61 ICHVSDISMVKKHASVDPLSLHLAKLFWP 89
+ + + + A +DPL +
Sbjct: 41 LGLIQ-LFDGEHLALIDPLGITDWSPLKA 68
>2hl0_A Threonyl-tRNA synthetase; translation, editing, aminoacyl-tRNA
synthetase, enzyme mechanism, enantioselectivity,
ligase; HET: A3S; 1.86A {Pyrococcus abyssi} PDB: 2hkz_A
1y2q_A* 2hl2_A* 2hl1_A*
Length = 143
Score = 26.6 bits (59), Expect = 7.2
Identities = 9/21 (42%), Positives = 11/21 (52%), Gaps = 1/21 (4%)
Query: 117 FRVPCGFTKKL-IETYGHPLA 136
+ P G+ K I GHPLA
Sbjct: 113 GKAPFGYYKAFKISCKGHPLA 133
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
0.319 0.135 0.389
Gapped
Lambda K H
0.267 0.0528 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 24244
Number of Hits to DB: 2,736,923
Number of extensions: 124917
Number of successful extensions: 280
Number of sequences better than 10.0: 1
Number of HSP's gapped: 263
Number of HSP's successfully gapped: 15
Length of query: 330
Length of database: 5,693,230
Length adjustment: 93
Effective length of query: 237
Effective length of database: 3,438,538
Effective search space: 814933506
Effective search space used: 814933506
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: 57 (26.2 bits)