RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 021913
(305 letters)
>gnl|CDD|178888 PRK00132, rpsI, 30S ribosomal protein S9; Reviewed.
Length = 130
Score = 104 bits (263), Expect = 5e-28
Identities = 34/68 (50%), Positives = 46/68 (67%)
Query: 233 YGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCT 292
YGTGRRK ++ARV ++PG GK VN ++ + YFP R + +P T+T G +DV T
Sbjct: 7 YGTGRRKTAVARVRLKPGSGKITVNGRDLEEYFPRETLRMVVRQPLELTETEGKFDVYVT 66
Query: 293 VKGGGVSG 300
VKGGG+SG
Sbjct: 67 VKGGGISG 74
>gnl|CDD|201193 pfam00380, Ribosomal_S9, Ribosomal protein S9/S16. This family
includes small ribosomal subunit S9 from prokaryotes and
S16 from eukaryotes.
Length = 121
Score = 104 bits (261), Expect = 7e-28
Identities = 33/65 (50%), Positives = 43/65 (66%)
Query: 236 GRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWDVDCTVKG 295
GRRK ++ARVW++PG GK +N K + YFP R +L P T TLG +D+ TVKG
Sbjct: 1 GRRKTAVARVWLKPGSGKITINGKPLEEYFPNETLRMKILEPLELTGTLGKFDIVVTVKG 60
Query: 296 GGVSG 300
GG+SG
Sbjct: 61 GGISG 65
>gnl|CDD|223181 COG0103, RpsI, Ribosomal protein S9 [Translation, ribosomal
structure and biogenesis].
Length = 130
Score = 91.4 bits (228), Expect = 6e-23
Identities = 32/72 (44%), Positives = 48/72 (66%)
Query: 229 KGRAYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPFSETKTLGLWD 288
+ + Y TG+RK ++ARV + PG GK VN + ++YFP R +++P T T+G +D
Sbjct: 3 EDQVYTTGKRKSAVARVRLVPGKGKITVNGRPLELYFPRETLRMKIMQPLLLTGTVGKFD 62
Query: 289 VDCTVKGGGVSG 300
+D TVKGGG+SG
Sbjct: 63 IDVTVKGGGISG 74
>gnl|CDD|214357 CHL00079, rps9, ribosomal protein S9.
Length = 130
Score = 71.8 bits (177), Expect = 1e-15
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 7/73 (9%)
Query: 232 AYGTGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLR----PFSETKTLGLW 287
GTGRRK ++A+V + PG G+ I+N K + Y + L P +
Sbjct: 5 YIGTGRRKTAVAQVRLVPGSGEIIINGKPAEEYLQ---YNPNYLNAIKAPLKLLGLENKY 61
Query: 288 DVDCTVKGGGVSG 300
D+ VKGGG++G
Sbjct: 62 DIIVKVKGGGLTG 74
>gnl|CDD|179041 PRK00474, rps9p, 30S ribosomal protein S9P; Reviewed.
Length = 134
Score = 46.4 bits (111), Expect = 1e-06
Identities = 21/69 (30%), Positives = 36/69 (52%), Gaps = 3/69 (4%)
Query: 235 TGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPF--SETKTLGLWDVDCT 292
+G+RK +IAR I+ G G+ +N ++ P L R ++ P + D+D
Sbjct: 8 SGKRKTAIARATIREGKGRVRINGVPLELIEPEL-ARLKIMEPLILAGEDLRSKVDIDVN 66
Query: 293 VKGGGVSGE 301
V+GGG+ G+
Sbjct: 67 VEGGGIMGQ 75
>gnl|CDD|132666 TIGR03627, arch_S9P, archaeal ribosomal protein S9P. This model
describes exclusively the archaeal ribosomal protein
S9P. Homologous eukaryotic and bacterial ribosomal
proteins are excluded from this model [Protein
synthesis, Ribosomal proteins: synthesis and
modification].
Length = 130
Score = 45.0 bits (107), Expect = 5e-06
Identities = 22/69 (31%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 235 TGRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPF--SETKTLGLWDVDCT 292
+G+RK +IAR I+ G G+ +N ++Y P L R ++ P + + D+D
Sbjct: 5 SGKRKTAIARATIREGKGRVRINGVPVELYPPEL-ARLKIMEPLILAGDIAKEV-DIDVK 62
Query: 293 VKGGGVSGE 301
V GGG+ G+
Sbjct: 63 VSGGGIMGQ 71
>gnl|CDD|234082 TIGR02997, Sig70-cyanoRpoD, RNA polymerase sigma factor,
cyanobacterial RpoD-like family. This family includes a
number of closely related sigma-70 (TIGR02937) factors
in the cyanobacteria. All appear most closely related to
the essential sigma-70 factor RpoD, and some score above
trusted to the RpoD C-terminal domain model (TIGR02393).
Length = 298
Score = 31.8 bits (73), Expect = 0.38
Identities = 33/127 (25%), Positives = 56/127 (44%), Gaps = 18/127 (14%)
Query: 116 ETGRESGEADEESKEELSEEELRMLQLEEKQLTAELQGP-----SRAFGDLIAASGIT-- 168
+ GR EA+ EL E++R L L+ + L P GDL+ G +
Sbjct: 173 KLGRTPSEAEIAEALELEPEQVREL-LQRARQPVSLDAPVGDEEDTELGDLLEDDGESPE 231
Query: 169 DAMLESLIALKDLEGVEGLPPLSEIE----EMRYEKNT-RKSTRAEIERQKQEEVAKARV 223
+ + + +DLE + L L+ E +R+ + T AEI R+ +++ RV
Sbjct: 232 EQVERESLR-QDLESL--LAELTPRERQVLRLRFGLDGGEPLTLAEIGRRL--NLSRERV 286
Query: 224 RQVDEKG 230
RQ++ K
Sbjct: 287 RQIEAKA 293
>gnl|CDD|221710 pfam12685, SpoIIIAH, SpoIIIAH-like protein. Stage III sporulation
protein AH (SpoIIIAH) is a protein that is involved in
forespore engulfment. It forms a channel with SpoIIIAH
that is open on the forespore end and closed (or gated)
on the mother cell end. This allows sigma-E-directed
gene expression in the mother-cell compartment of the
sporangium to trigger the activation of sigma-G
forespore-specific gene expression by a pathway of
intercellular signaling. This family of proteins is
found in bacteria, archaea and eukaryotes and so must
have a wider function that in sporulation. Proteins in
this family are typically between 174 and 223 amino
acids in length.
Length = 141
Score = 29.9 bits (68), Expect = 0.91
Identities = 14/51 (27%), Positives = 23/51 (45%), Gaps = 9/51 (17%)
Query: 120 ESGEADEESKEELSEEELRMLQLEEKQLTAELQGPSRAFGDLIAASGITDA 170
+ A E K+E ++ L + +L EK++ E L+ A G DA
Sbjct: 56 ANENASAEEKKEAQDKLLELTELAEKEMAIEN---------LLKAKGFEDA 97
>gnl|CDD|233394 TIGR01394, TypA_BipA, GTP-binding protein TypA/BipA. This
bacterial (and Arabidopsis) protein, termed TypA or
BipA, a GTP-binding protein, is phosphorylated on a
tyrosine residue under some cellular conditions. Mutants
show altered regulation of some pathways, but the
precise function is unknown [Regulatory functions,
Other, Cellular processes, Adaptations to atypical
conditions, Protein synthesis, Translation factors].
Length = 594
Score = 30.7 bits (70), Expect = 0.94
Identities = 13/38 (34%), Positives = 22/38 (57%), Gaps = 3/38 (7%)
Query: 158 FGDLIAASGITDAMLESLIALKDLEGVEGLPPLSEIEE 195
GD++A +G+ D + IA D E E LP ++ ++E
Sbjct: 266 AGDIVAVAGLEDINIGETIA--DPEVPEALPTIT-VDE 300
>gnl|CDD|215558 PLN03073, PLN03073, ABC transporter F family; Provisional.
Length = 718
Score = 31.0 bits (70), Expect = 0.96
Identities = 38/125 (30%), Positives = 55/125 (44%), Gaps = 9/125 (7%)
Query: 100 VKDGSFEIGESA-GTFDETGRESGEADEESKEELSEEELRML--QLEEKQLTAELQGPSR 156
+ D F+ G G FD G A+ S + E R++ +L EK L P
Sbjct: 34 LADEDFDFGPEGEGAFDALGELLVAAECVS----DDAECRLVCSKLAEKFGKHGLVKPKP 89
Query: 157 AFGDLIAASGITDAMLESLIALKDLEGVEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQE 216
+ L A ++D M +S +A K E +G P LSE + + E+ RK R E Q Q
Sbjct: 90 SVRSLAAPVRMSDGMDDSEVAKKKPEPDDG-PLLSERDLAKIERRKRKEERQR-EVQYQA 147
Query: 217 EVAKA 221
VA+
Sbjct: 148 HVAEM 152
>gnl|CDD|165433 PHA03162, PHA03162, hypothetical protein; Provisional.
Length = 135
Score = 29.4 bits (65), Expect = 1.1
Identities = 23/98 (23%), Positives = 39/98 (39%), Gaps = 14/98 (14%)
Query: 130 EELSEEELRMLQLEEKQLTAELQ---GPSRAFGDLIAASGITDAMLESLIALKDLEGVEG 186
E+L E+ LQLE K L +++ GD I +AM+ + A + +
Sbjct: 16 EDL-AAEIAKLQLENKALKKKIKEGTDDDPLPGDPILTPAAKEAMIGAATAALTRQAAK- 73
Query: 187 LPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVR 224
+IE + + +T+ E E +A R R
Sbjct: 74 -----KIEAKIRHETLKATTKEEFE----AAIANIRFR 102
>gnl|CDD|220102 pfam09073, BUD22, BUD22. BUD22 has been shown in yeast to be a
nuclear protein involved in bud-site selection. It plays
a role in positioning the proximal bud pole signal. More
recently it has been shown to be involved in ribosome
biogenesis.
Length = 424
Score = 30.2 bits (68), Expect = 1.3
Identities = 26/144 (18%), Positives = 48/144 (33%), Gaps = 13/144 (9%)
Query: 1 MLARMLLKPSHFRLLTNLSPISHFFPQ-----NPGVPPLISFSRFFSSNNNSND---NNQ 52
L L+K T S F Q + P S + + N+
Sbjct: 62 YLFSKLIKVIT-SKPTKAWAESPEFRQIINDKSHKANPSRSEAEVVEKLKSLNNVVSRLL 120
Query: 53 SSSNVWNLSREIDGKFDQLFGDTEAKDVGQDELFNAEENQSWSFEEGVKDGSFEIGESAG 112
+S V N+ I D++ G G+ + + +S +E + + E +
Sbjct: 121 NSKPVKNVLESIMEGLDKILGIETKAKKGKAK---KKTKKSKK-KEAKESSDKDDEEESE 176
Query: 113 TFDETGRESGEADEESKEELSEEE 136
+ DE+ E D+ EE + +
Sbjct: 177 SEDESKSEESAEDDSDDEEEEDSD 200
>gnl|CDD|234352 TIGR03779, Bac_Flav_CT_M, Bacteroides conjugative transposon TraM
protein. Members of this protein family are designated
TraM and are found in a proposed transfer region of a
class of conjugative transposon found in the Bacteroides
lineage [Cellular processes, DNA transformation].
Length = 410
Score = 29.3 bits (66), Expect = 2.3
Identities = 20/93 (21%), Positives = 32/93 (34%), Gaps = 8/93 (8%)
Query: 61 SREIDGKFDQLFGDTEAKDVGQDELFNAEENQSWSFEEGVKDGSF-EIGESAGTFDETGR 119
R + D ++ QD + E GS I SA + + R
Sbjct: 75 KRTLQDLADSF---EKSDKESQDYSSSDSGFDEEPDEPAETAGSLRPIRSSAAAYRDINR 131
Query: 120 ESGEADEESKEELSEEELRMLQLEEKQLTAELQ 152
E G E K + +E LR ++ +L + L
Sbjct: 132 ELGSFYEYPKTDEEKELLREVE----ELESRLA 160
>gnl|CDD|233191 TIGR00927, 2A1904, K+-dependent Na+/Ca+ exchanger. [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 1096
Score = 29.6 bits (66), Expect = 2.4
Identities = 25/99 (25%), Positives = 44/99 (44%), Gaps = 9/99 (9%)
Query: 65 DGKFDQLFGDTEAKDVGQDELFNAEENQSWSFEEGVKDGSFEI-----GESA----GTFD 115
+G ++ + E + +DE E Q+ E + G E+ GE+ G
Sbjct: 795 EGAEGKVEHEGETEAGEKDEHEGQSETQADDTEVKDETGEQELNAENQGEAKQDEKGVDG 854
Query: 116 ETGRESGEADEESKEELSEEELRMLQLEEKQLTAELQGP 154
G + G+++EE +EE EEE + EE++ E + P
Sbjct: 855 GGGSDGGDSEEEEEEEEEEEEEEEEEEEEEEEEEENEEP 893
>gnl|CDD|227430 COG5099, COG5099, RNA-binding protein of the Puf family,
translational repressor [Translation, ribosomal
structure and biogenesis].
Length = 777
Score = 29.3 bits (66), Expect = 2.9
Identities = 13/44 (29%), Positives = 17/44 (38%), Gaps = 6/44 (13%)
Query: 12 FRLLTNLSPISHFFPQNPGVPPLISFSRFFSSNNNSNDNNQSSS 55
F NLSP + F + +S S N+ N SSS
Sbjct: 223 FNPPPNLSPNNLFSTSD------LSPLPDTQSVENNIILNSSSS 260
>gnl|CDD|224138 COG1217, TypA, Predicted membrane GTPase involved in stress
response [Signal transduction mechanisms].
Length = 603
Score = 29.1 bits (66), Expect = 3.0
Identities = 13/37 (35%), Positives = 21/37 (56%), Gaps = 3/37 (8%)
Query: 159 GDLIAASGITDAMLESLIALKDLEGVEGLPPLSEIEE 195
GD++A +G+ D + I D + E LP LS ++E
Sbjct: 271 GDIVAIAGLEDINIGDTIC--DPDNPEALPALS-VDE 304
>gnl|CDD|213544 TIGR00636, PduO_Nterm, ATP:cob(I)alamin adenosyltransferase. This
model represents as ATP:cob(I)alamin adenosyltransferase
family corresponding to the N-terminal half of
Salmonella PduO, a 1,2-propanediol utilization protein
that probably is bifunctional. PduO represents one of at
least three families of ATP:corrinoid
adenosyltransferase: others are CobA (which partially
complements PduO) and EutT. It was not clear originally
whether ATP:cob(I)alamin adenosyltransferase activity
resides in the N-terminal region of PduO, modeled here,
but this has now become clear from the characterization
of MeaD from Methylobacterium extorquens [Biosynthesis
of cofactors, prosthetic groups, and carriers, Heme,
porphyrin, and cobalamin].
Length = 171
Score = 28.5 bits (64), Expect = 3.2
Identities = 24/90 (26%), Positives = 36/90 (40%), Gaps = 10/90 (11%)
Query: 101 KDGSFEIGESAGTFDETGRESGEADEESKEELSEEELRMLQLEEKQLTAELQGPSRAFGD 160
KD E+ GT DE G A K E +E+L +Q + + +L P
Sbjct: 20 KDS--PRVEAYGTLDELNSFIGVALSLLKWEDLKEDLERIQNDLFDIGGDLATPGD---- 73
Query: 161 LIAASGITDAMLESLIALKDLEGVEGLPPL 190
IT+ ++ L D + + LPPL
Sbjct: 74 ---TKKITEEDVKWLEERID-QYRKELPPL 99
>gnl|CDD|235097 PRK02999, PRK02999, malate synthase G; Provisional.
Length = 726
Score = 29.0 bits (66), Expect = 3.3
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 166 GITDAMLESLIALKDLEG 183
GI DA++ SLIAL DL+G
Sbjct: 362 GILDAVVTSLIALHDLKG 379
>gnl|CDD|219361 pfam07277, SapC, SapC. This family contains a number of bacterial
SapC proteins approximately 250 residues long. In
Campylobacter fetus, SapC forms part of a
paracrystalline surface layer (S-layer) that confers
serum resistance.
Length = 220
Score = 28.7 bits (65), Expect = 3.6
Identities = 17/58 (29%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 125 DEESKEELSEEELRMLQLEEKQLTAELQGPSRAFGDLIAASGITDAMLESLIALKDLE 182
DE+S +SE+E L E+ + T L+ + DL + T A +++L LE
Sbjct: 105 DEDS-PRVSEDEGEALFDEDGEPTEYLKQILQFLEDLEEGAQRTQAFIQALAEHDLLE 161
>gnl|CDD|225606 COG3064, TolA, Membrane protein involved in colicin uptake [Cell
envelope biogenesis, outer membrane].
Length = 387
Score = 28.8 bits (64), Expect = 3.8
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 22/130 (16%)
Query: 116 ETGRESGEADEESKEELSEEELRMLQLEEKQLTAELQGPSRAFGDLIAASGITDAMLESL 175
++ + GE + KEE EEL+ Q E++ +L+ E L
Sbjct: 71 QSSAKKGEQQRKKKEEQVAEELKPKQAAEQERLKQLE-------------------KERL 111
Query: 176 IALKDLEGVEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEKGRAYGT 235
A + + E +++E+ + E+ RK A E++K+ E AKA+ K +A
Sbjct: 112 KAQEQQKQAEEAEKQAQLEQKQQEEQARK---AAAEQKKKAEAAKAKAAAEAAKLKAAAE 168
Query: 236 GRRKCSIARV 245
++K A
Sbjct: 169 AKKKAEEAAK 178
>gnl|CDD|215570 PLN03091, PLN03091, hypothetical protein; Provisional.
Length = 459
Score = 28.8 bits (64), Expect = 4.4
Identities = 18/53 (33%), Positives = 22/53 (41%), Gaps = 6/53 (11%)
Query: 7 LKPSHFRLLTNLSPISHFFPQNPGVPPLISFSRFFSSNNNSNDNNQSSSNVWN 59
KP S IS P + S S S NNSN+NN S+SN+
Sbjct: 165 SKPLAALQEKRSSSIS---PAGYQLEVESSSS---SKINNSNNNNHSNSNLMT 211
>gnl|CDD|237565 PRK13934, PRK13934, stationary phase survival protein SurE;
Provisional.
Length = 266
Score = 28.2 bits (63), Expect = 4.6
Identities = 12/49 (24%), Positives = 27/49 (55%)
Query: 185 EGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEKGRAY 233
G+P ++ + + + R+ +A++ + + A+ R+VD +GRAY
Sbjct: 159 RGMPKGVDVISVNFPRRLRRGVKAKLVKAAKLRFAQQVERRVDPRGRAY 207
>gnl|CDD|179108 PRK00748, PRK00748,
1-(5-phosphoribosyl)-5-[(5-
phosphoribosylamino)methylideneamino]
imidazole-4-carboxamide isomerase; Validated.
Length = 233
Score = 28.1 bits (64), Expect = 5.0
Identities = 15/42 (35%), Positives = 22/42 (52%), Gaps = 6/42 (14%)
Query: 146 QLTAELQGPSRAFG-DLIAASGITDAMLESLIALKDLEGVEG 186
+ T EL A +IA+ G++ L+ + ALK L VEG
Sbjct: 180 EATRELA---AAVPIPVIASGGVSS--LDDIKALKGLGAVEG 216
>gnl|CDD|202096 pfam02029, Caldesmon, Caldesmon.
Length = 431
Score = 28.5 bits (63), Expect = 5.1
Identities = 26/114 (22%), Positives = 53/114 (46%), Gaps = 2/114 (1%)
Query: 119 RESGEADEESKE-ELSEEELRMLQLEEKQLTAELQGPSRAFGDLIAASGITDAMLESLIA 177
R++ E +E KE E EEE E+ + + + + G A +E+
Sbjct: 142 RDAEECQKEEKEPEPEEEEKPKRGSLEENNGEFMTHKLKHTENTFSRGGAEGAQVEAGKE 201
Query: 178 LKDLEGVEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEKGR 231
+ L+ + E+EE++ ++ R+ E E+++++E A + R+ +EK R
Sbjct: 202 FEKLKQKQQ-EAALELEELKKKREERRKVLEEEEQRRKQEEADRKSREEEEKRR 254
>gnl|CDD|235091 PRK02958, tatA, twin arginine translocase protein A; Provisional.
Length = 73
Score = 26.1 bits (58), Expect = 5.6
Identities = 17/58 (29%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 72 FGDTEAKDVGQDELFNAEENQSWSFEEGVKDGSFEIGESAGTFDETGRESGEADEESK 129
FG + +++G D L A + F++G+K+G A ++G EA E+SK
Sbjct: 20 FGTKKLRNIGSD-LGGAVKG----FKDGMKEGETPQEAQAQQLPDSGTIDVEAKEKSK 72
>gnl|CDD|238370 cd00728, malate_synt_G, Malate synthase G (MSG), monomeric enzyme
present in some bacteria. In general, malate synthase
catalyzes the Claisen condensation of glyoxylate and
acetyl-CoA to malyl-CoA , which hydrolyzes to malate and
CoA. This reaction is part of the glyoxylate cycle,
which allows certain organisms to derive their carbon
requirements from two-carbon compounds, by bypassing the
two carboxylation steps of the citric acid cycle.
Length = 712
Score = 28.5 bits (64), Expect = 5.7
Identities = 12/18 (66%), Positives = 15/18 (83%)
Query: 166 GITDAMLESLIALKDLEG 183
GI DA++ SLIAL DL+G
Sbjct: 354 GIMDAVITSLIALHDLKG 371
>gnl|CDD|227880 COG5593, COG5593, Nucleic-acid-binding protein possibly involved in
ribosomal biogenesis [Translation, ribosomal structure
and biogenesis].
Length = 821
Score = 28.5 bits (63), Expect = 5.9
Identities = 26/73 (35%), Positives = 31/73 (42%), Gaps = 8/73 (10%)
Query: 68 FDQLFGDTEAK-DVGQDELFNAEENQSWSFEEGVKDGSFEIGESAGTFDETG---RESGE 123
F D E K D DE +E +Q EEG+ EI S + ES E
Sbjct: 717 FSDSTSDDEPKLDAIDDEDAKSEGSQESDQEEGLD----EIFYSFDGEQDNSDSFAESSE 772
Query: 124 ADEESKEELSEEE 136
DE S+EE EEE
Sbjct: 773 EDESSEEEKEEEE 785
>gnl|CDD|227512 COG5185, HEC1, Protein involved in chromosome segregation,
interacts with SMC proteins [Cell division and
chromosome partitioning].
Length = 622
Score = 28.4 bits (63), Expect = 6.2
Identities = 23/73 (31%), Positives = 35/73 (47%), Gaps = 4/73 (5%)
Query: 83 DELFNAEENQSWSFEEGVKDGSFEIGESA---GTFDETGRESGEADEESKEELSEEELRM 139
E EEN+S + EE +K+ +I E + E+ E SKEE +E EL
Sbjct: 472 QERIKTEENKSITLEEDIKNLKHDINELTQILEKLELELSEANSKFELSKEE-NERELVA 530
Query: 140 LQLEEKQLTAELQ 152
++E ++L EL
Sbjct: 531 QRIEIEKLEKELN 543
>gnl|CDD|115714 pfam07078, FYTT, Forty-two-three protein. This family consists of
several mammalian proteins of around 320 residues in
length called 40-2-3 proteins. The function of this
family is unknown.
Length = 316
Score = 28.2 bits (62), Expect = 6.3
Identities = 32/115 (27%), Positives = 49/115 (42%), Gaps = 8/115 (6%)
Query: 169 DAMLESLIALKDLEGV-EGLPPLSEIEEMRYEKNTRKSTRAEIERQKQ--EEVAKARVRQ 225
D L+ +I L EG + P L+ + + R R I++ + R R
Sbjct: 30 DMSLDDIIKLNRKEGKKQNFPRLNRRLQQSGARQFRMRVRWGIQQNSGFGKNSLSRRGRV 89
Query: 226 VDEKGRAYGT----GRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLR 276
+ K R YG RK + R I P + + ++DK + YFP L +A LLR
Sbjct: 90 LPGKRRPYGVITGLAARKATGIRKGISPMN-RPPLSDKNIERYFPALKRKANLLR 143
>gnl|CDD|220402 pfam09787, Golgin_A5, Golgin subfamily A member 5. Members of this
family of proteins are involved in maintaining Golgi
structure. They stimulate the formation of Golgi stacks
and ribbons, and are involved in intra-Golgi retrograde
transport. Two main interactions have been
characterized: one with RAB1A that has been activated by
GTP-binding and another with isoform CASP of CUTL1.
Length = 509
Score = 28.3 bits (63), Expect = 6.4
Identities = 23/109 (21%), Positives = 48/109 (44%), Gaps = 3/109 (2%)
Query: 124 ADEESKEELSEEELRMLQLEEKQLTAELQGPSRAFGDLIAASGITDAMLESLIALKDLEG 183
+ +E ++ L++L+ E + ELQ R I S + + L EG
Sbjct: 208 SKHLQEEGELQQLLKLLRAEGESEKQELQ-QYRQKAHRILQS--KEKRINFLKEGCLFEG 264
Query: 184 VEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEKGRA 232
++ E+EE+++E + ++E Q + ++A+ R+ + G A
Sbjct: 265 LDSSTAQIELEELKHESEHVQEEITKLEGQIIQLRSEAQDREAEASGEA 313
>gnl|CDD|177799 PLN00210, PLN00210, 40S ribosomal protein S16; Provisional.
Length = 141
Score = 27.0 bits (60), Expect = 6.9
Identities = 17/65 (26%), Positives = 28/65 (43%), Gaps = 5/65 (7%)
Query: 236 GRRKCSIARVWIQPGDGKFIVNDKEFDVYFPMLDHRAALLRPF---SETKTLGLWDVDCT 292
GR+K ++A + + G G +N ++ P R P + G+ D+
Sbjct: 9 GRKKTAVAVTYCKRGRGLIKINGCPIELVQP-EILRFKAFEPILLLGRHRFAGV-DMRIR 66
Query: 293 VKGGG 297
VKGGG
Sbjct: 67 VKGGG 71
>gnl|CDD|177251 MTH00208, ND5, NADH dehydrogenase subunit 5; Provisional.
Length = 628
Score = 28.0 bits (63), Expect = 7.3
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 5/57 (8%)
Query: 5 MLLKPSHFRLLTNLSPI-----SHFFPQNPGVPPLISFSRFFSSNNNSNDNNQSSSN 56
M++ PS NLS S FF N + S ++NNNS N +S+
Sbjct: 1 MVINPSMIISSINLSIFIILLISIFFSSNLPNISTSNASLGGNNNNNSIINYNNSNF 57
>gnl|CDD|239899 cd04452, S1_IF2_alpha, S1_IF2_alpha: The alpha subunit of
translation Initiation Factor 2, S1-like RNA-binding
domain. S1-like RNA-binding domains are found in a wide
variety of RNA-associated proteins. Eukaryotic and
archaeal Initiation Factor 2 (e- and aIF2, respectively)
are heterotrimeric proteins with three subunits (alpha,
beta, and gamma). IF2 plays a crucial role in the
process of translation initiation. The IF2 gamma subunit
contains a GTP-binding site. The IF2 beta and gamma
subunits together are thought to be responsible for
binding methionyl-initiator tRNA. The ternary complex
consisting of IF2, GTP, and the methionyl-initiator tRNA
binds to the small subunit of the ribosome, as part of a
pre-initiation complex that scans the mRNA to find the
AUG start codon. The IF2-bound GTP is hydrolyzed to GDP
when the methionyl-initiator tRNA binds the AUG start
codon, at which time the IF2 is released with its bound
GDP. The large ribosomal subunit then joins with the
small subunit to complete the initiation complex, which
is competent to begin translation. The IF2a subunit is a
major site of control of the translation initiation
process, via phosphorylation of a specific serine
residue. This alpha subunit is well conserved in
eukaryotes and archaea but is not present in bacteria.
IF2 is a cold-shock-inducible protein.
Length = 76
Score = 26.0 bits (58), Expect = 7.5
Identities = 16/54 (29%), Positives = 29/54 (53%), Gaps = 8/54 (14%)
Query: 176 IALKDLEGVEGLPPLSEIEEMRYEKNTRKSTRAEIERQKQEEVAKARVRQVDEK 229
++L + +EG+ LSE+ R ++ RK + +K EV K V +VD++
Sbjct: 21 VSLLEYGNIEGMILLSELSRRRI-RSIRKLVK---VGRK--EVVK--VIRVDKE 66
>gnl|CDD|167208 PRK01310, PRK01310, hypothetical protein; Validated.
Length = 104
Score = 26.5 bits (59), Expect = 8.4
Identities = 9/17 (52%), Positives = 9/17 (52%)
Query: 216 EEVAKARVRQVDEKGRA 232
V K RVR V E G A
Sbjct: 37 RAVLKVRVRAVPEGGEA 53
>gnl|CDD|178137 PLN02522, PLN02522, ATP citrate (pro-S)-lyase.
Length = 608
Score = 27.9 bits (62), Expect = 8.7
Identities = 9/17 (52%), Positives = 15/17 (88%)
Query: 99 GVKDGSFEIGESAGTFD 115
G++ G+F+IG++AGT D
Sbjct: 141 GIQAGAFKIGDTAGTLD 157
>gnl|CDD|176868 cd07826, SRPBCC_CalC_Aha1-like_9, Putative hydrophobic
ligand-binding SRPBCC domain of an uncharacterized
subgroup of CalC- and Aha1-like proteins. SRPBCC
(START/RHO_alpha_C/PITP/Bet_v1/CoxG/CalC) domain of a
functionally uncharacterized subgroup of CalC- and
Aha1-like proteins. This group shows similarity to the
SRPBCC domains of Micromonospora echinospora CalC (a
protein which confers resistance to enediynes) and human
Aha1 (one of several co-chaperones which regulate the
dimeric chaperone Hsp90), and belongs to the SRPBCC
domain superfamily of proteins that bind hydrophobic
ligands. SRPBCC domains have a deep hydrophobic
ligand-binding pocket and they bind diverse ligands.
Length = 142
Score = 26.8 bits (60), Expect = 9.9
Identities = 14/35 (40%), Positives = 20/35 (57%)
Query: 147 LTAELQGPSRAFGDLIAASGITDAMLESLIALKDL 181
LTA + PS+ D + ASG+ + M ES L +L
Sbjct: 105 LTATSRYPSKEARDGVLASGMEEGMEESYDRLDEL 139
Database: CDD.v3.10
Posted date: Mar 20, 2013 7:55 AM
Number of letters in database: 10,937,602
Number of sequences in database: 44,354
Lambda K H
0.314 0.133 0.381
Gapped
Lambda K H
0.267 0.0710 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 15,922,570
Number of extensions: 1565210
Number of successful extensions: 1812
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1770
Number of HSP's successfully gapped: 103
Length of query: 305
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 208
Effective length of database: 6,635,264
Effective search space: 1380134912
Effective search space used: 1380134912
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 59 (26.5 bits)