RPS-BLAST 2.2.22 [Sep-27-2009]
Database: CddA
21,609 sequences; 6,263,737 total letters
Searching..................................................done
Query= gi|254780760|ref|YP_003065173.1| hypothetical protein
CLIBASIA_03235 [Candidatus Liberibacter asiaticus str. psy62]
(330 letters)
>gnl|CDD|30359 COG0009, SUA5, Putative translation factor (SUA5) [Translation,
ribosomal structure and biogenesis].
Length = 211
Score = 181 bits (461), Expect = 2e-46
Identities = 88/211 (41%), Positives = 119/211 (56%), Gaps = 8/211 (3%)
Query: 1 MQIMSITDSN----ALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPA 56
QI I N A+ KA E L G +A PT+TVYGL D+ N A+ RLYEIK+RP+
Sbjct: 1 TQIFMIHPENPQPRAIEKAVEALRKGGVVAYPTDTVYGLGADATNEEAVERLYEIKQRPS 60
Query: 57 MNPLICHVSDISMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTAC 116
PLI HV+ + +K++A V ++ L K FWPGPLT +L L TA L T
Sbjct: 61 DKPLILHVASLEQLKEYADVPDVARKLLKAFWPGPLTFILPATKEVPR-RLVTAGLSTIA 119
Query: 117 FRVP-CGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIG 175
RVP LIE G PLA SAN SGQ S T + + + ++ LIIDGG + G
Sbjct: 120 VRVPDHPIALALIEALGEPLASTSANLSGQPSPTTAEEV-RADFGGQVDLIIDGGPCRGG 178
Query: 176 LESTIVNVQCEKKVRILRPGGLEIETLKRAI 206
L STI+++ + RILRPG + +E +++ +
Sbjct: 179 LPSTIIDLTDD-PPRILRPGAISLEEIEKLL 208
>gnl|CDD|144776 pfam01300, Sua5_yciO_yrdC, yrdC domain. This domain has been shown
to preferentially bind to dsRNA. The domain is found in
SUA5 as well as HypF and YrdC.
Length = 178
Score = 179 bits (456), Expect = 1e-45
Identities = 72/181 (39%), Positives = 105/181 (58%), Gaps = 5/181 (2%)
Query: 17 EFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVSDISMVKKHAS- 75
E L G +A PT+TVYGL D+ N A+ RL EIK RP PL V+D+ +K++A
Sbjct: 1 EALRQGGIVAYPTDTVYGLGCDATNEEAVERLREIKGRPRDKPLAVMVADLEQLKEYADE 60
Query: 76 VDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVP-CGFTKKLIETYGHP 134
V+ +L LA+ FWPGP+TL+L S + + L T L T R+P + L+E G P
Sbjct: 61 VEEAALKLAERFWPGPITLILP-ASKSKLPKLVTPGLGTVGVRLPDHPLARLLLEALGEP 119
Query: 135 LAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTIVNVQCEKKVRILRP 194
L SAN SG+ S T+ + +L + + LI+DGG +G++ST+V++ + ILR
Sbjct: 120 LVATSANLSGEPSATDAEEVL-EELGGIVDLILDGGRIPVGVDSTVVDL-TDGPPEILRR 177
Query: 195 G 195
G
Sbjct: 178 G 178
>gnl|CDD|38261 KOG3051, KOG3051, KOG3051, RNA binding/translational regulation
protein of the SUA5 family [Translation, ribosomal
structure and biogenesis].
Length = 261
Score = 131 bits (331), Expect = 2e-31
Identities = 89/242 (36%), Positives = 122/242 (50%), Gaps = 10/242 (4%)
Query: 4 MSITDSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICH 63
+ T A +A PTETVYGL + N A+ RLY++K RPA NPLI H
Sbjct: 11 TAETSPALYDAALIVRRTDKRVAFPTETVYGLGASAYNEVAVLRLYKLKNRPADNPLIVH 70
Query: 64 VSDISMVKK--HASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVP- 120
VS + +K+ ++ L L LA WPGPLTL+L+ + L+ L + R+P
Sbjct: 71 VSSVDQLKRVVAINIPSLYLPLASYLWPGPLTLLLERADEC-LSKLTNPGLPSVAVRIPD 129
Query: 121 CGFTKKLIETYGHPLAIPSANRSGQISITNVKHILSSSICKEIPLIIDGGISKIGLESTI 180
LI G PLA+ SAN S + S T H+ + + +IPLI+DGG G+EST+
Sbjct: 130 HPVASALIPKLGVPLALTSANASSRPSPTLAIHVF-ADLQPKIPLILDGGACGSGVESTV 188
Query: 181 VNVQCEKKVRILRPGGLEIE-TLKRAISVELEYCVDETS---TPQSPGMLKSHYAPRSQV 236
V + V ILRPGG+ E + R VD T +PGM HY+P ++V
Sbjct: 189 VEGSTD-PVDILRPGGITGEDIVVRGGCAVESTKVDMTEPGEKVITPGMKYRHYSPTAKV 247
Query: 237 RL 238
L
Sbjct: 248 DL 249
>gnl|CDD|146234 pfam03481, SUA5, SUA5 domain. The function of this domain is
unknown, it is found in Saccharomyces cerevisiae SUA5
and its relatives. It is found to the C-terminus of
pfam01300.
Length = 144
Score = 95.8 bits (239), Expect = 1e-20
Identities = 38/127 (29%), Positives = 55/127 (43%), Gaps = 14/127 (11%)
Query: 208 VELEYCVDETSTPQSPGMLKSHYAPRSQVRL------------RAIHVNPREALIRFGNV 255
L + P++PGM HYAP++ VRL + ++
Sbjct: 18 ALLRKKEADAEAPKAPGMKYRHYAPKAPVRLVEVAEKIRELVDELAAKGKKVGVLATEEE 77
Query: 256 PIKNIENAIISLNLSKTGKLKEAAFNLFNYMKIADDSGASSIAFSSIPNHGLGIAINNRL 315
+N +I L L+EAA NLF ++ D++G I P GLG+AI NRL
Sbjct: 78 TALFDKNPVIVLGSRGD--LEEAARNLFAALRELDEAGVDVILVEGFPEEGLGLAIMNRL 135
Query: 316 ERAAAPR 322
+AA PR
Sbjct: 136 RKAAGPR 142
>gnl|CDD|30417 COG0068, HypF, Hydrogenase maturation factor [Posttranslational
modification, protein turnover, chaperones].
Length = 750
Score = 46.1 bits (109), Expect = 1e-05
Identities = 36/141 (25%), Positives = 57/141 (40%), Gaps = 5/141 (3%)
Query: 6 ITDSNALRKACEFLDAGLPIAIPTETVYGLAVDSRNPTAIRRLYEIKKRPAMNPLICHVS 65
+ A+RKA + L G +AI + LA D+RN A+ +L + K RP P
Sbjct: 194 AEANEAIRKAAKLLKVGKIVAIKGIGGFHLACDARNEEAVAKLRKRKNRPL-KPFAVMAK 252
Query: 66 DISMVKKHASVDPLSLHLAKLFWPGPLTLVLDLLSTTDIHPLSTANLKTACFRVPCGFTK 125
D+ +++ A V+ L L P ++L + L T +P
Sbjct: 253 DLETIEEFAEVNDEEEEL--LTSPSRPIVLLKKKKVFLLESNIAPGLHTIGVMLPYTPLH 310
Query: 126 KLI--ETYGHPLAIPSANRSG 144
L+ E+ P + SAN G
Sbjct: 311 HLLLQESLDIPYVMTSANLPG 331
>gnl|CDD|177075 CHL00162, thiG, thiamin biosynthesis protein G; Validated.
Length = 267
Score = 27.4 bits (61), Expect = 6.0
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 20/81 (24%)
Query: 106 PLSTANLKTACFRVPCGFT-----------KKLIETYG----HPLAIPSANRSGQISITN 150
P+ T LK A F V GFT K +E G PL P + G ++ N
Sbjct: 123 PIGT--LKAAEFLVKKGFTVLPYINADPMLAKHLEDIGCATVMPLGSPIGSGQGLQNLLN 180
Query: 151 VKHILSSSICKEIPLIIDGGI 171
++ I+ ++ +IP+IID GI
Sbjct: 181 LQIIIENA---KIPVIIDAGI 198
Database: CddA
Posted date: Feb 4, 2011 9:38 PM
Number of letters in database: 6,263,737
Number of sequences in database: 21,609
Lambda K H
0.319 0.135 0.389
Gapped
Lambda K H
0.267 0.0668 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 21609
Number of Hits to DB: 3,804,962
Number of extensions: 194917
Number of successful extensions: 398
Number of sequences better than 10.0: 1
Number of HSP's gapped: 387
Number of HSP's successfully gapped: 10
Length of query: 330
Length of database: 6,263,737
Length adjustment: 94
Effective length of query: 236
Effective length of database: 4,232,491
Effective search space: 998867876
Effective search space used: 998867876
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: 58 (26.2 bits)