RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2841
(178 letters)
>gnl|CDD|110307 pfam01294, Ribosomal_L13e, Ribosomal protein L13e.
Length = 179
Score = 231 bits (590), Expect = 1e-78
Identities = 114/178 (64%), Positives = 142/178 (79%), Gaps = 1/178 (0%)
Query: 1 MIPNAHFHKDWQKYIKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCPTVRYH 60
MI N HF K WQ+ +K WFNQPARK RRR AR KA +IAPRPAAGPLRP+VRCPTV+Y+
Sbjct: 2 MILNNHFRKHWQRRVKTWFNQPARKVRRRNARQAKAVKIAPRPAAGPLRPVVRCPTVKYN 61
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVF 120
+VRAGRGFTLEE++ AG+N +FAR++GIAVD RRR++S+E LQ N+QRLKEY+SKLI+F
Sbjct: 62 MKVRAGRGFTLEELKAAGINKKFARTIGIAVDHRRRNRSLEGLQANVQRLKEYQSKLILF 121
Query: 121 PRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPKSKARIPSEAEKKFSAFQTLRM 178
PR KK R G+++ EE K ATQLKGP+MPI Q + +AR ++ EK F AF TLR+
Sbjct: 122 PRNP-KKPRAGDSSAEEVKSATQLKGPVMPIAQEAKRVEARKVTKEEKSFKAFATLRL 178
>gnl|CDD|240377 PTZ00352, PTZ00352, 60S ribosomal protein L13; Provisional.
Length = 212
Score = 179 bits (457), Expect = 7e-58
Identities = 91/186 (48%), Positives = 125/186 (67%), Gaps = 11/186 (5%)
Query: 1 MIPNAHFHKDWQKYIKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCPTVRYH 60
++PN H HK WQ+++K W+NQP RK RRR AR KKA PRP LRP+V PT RY+
Sbjct: 6 VLPNVHLHKHWQRFVKTWYNQPGRKKRRRLARQKKAAAAGPRPV-ELLRPVVHGPTQRYN 64
Query: 61 KRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVF 120
+VR GRGFTLEE++ AGLNA+ ARS+GIAVD RRR++S ESL LN++RLK Y SKL++F
Sbjct: 65 MKVRLGRGFTLEELKAAGLNAQAARSIGIAVDHRRRNRSQESLNLNVKRLKAYLSKLVLF 124
Query: 121 PRREKKKLRKGEA---------TPEERKVATQLKGPLMPIRQSKPKSKARIPSEAEKKFS 171
PR+ KK +KG A V ++P +++ + KAR+ ++ E+ F+
Sbjct: 125 PRK-GKKPKKGFAGIPADTSKEEVVALPVKQNKNSEVIPFQRTPKREKARVITKEERAFN 183
Query: 172 AFQTLR 177
A++TLR
Sbjct: 184 AYRTLR 189
>gnl|CDD|173472 PTZ00192, PTZ00192, 60S ribosomal protein L13; Provisional.
Length = 218
Score = 133 bits (337), Expect = 9e-40
Identities = 78/148 (52%), Positives = 102/148 (68%), Gaps = 8/148 (5%)
Query: 2 IPNAHFHKDWQKY------IKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCP 55
IP+ H K W +K + NQPA+K RRR+ R+ KAK+I PRP LRP V CP
Sbjct: 8 IPHVHQRKHWNPCSSQKGNVKVFLNQPAQKHRRRRLRLLKAKKIFPRPLKA-LRPQVNCP 66
Query: 56 TVRYHKRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKS 115
TVR++ + R GRGF+L E++ AGLN RFAR++GI VD RR++KS E + +N+QRLK Y S
Sbjct: 67 TVRHNMKQRLGRGFSLAELKAAGLNPRFARTIGIRVDRRRKNKSEEGMNVNVQRLKTYMS 126
Query: 116 KLIVFPRREKKKLRKGEATPEERKVATQ 143
KL++FP KK++KGEA EE K ATQ
Sbjct: 127 KLVLFP-MNHKKVQKGEAKEEEVKAATQ 153
>gnl|CDD|226798 COG4352, RPL13, Ribosomal protein L13E [Translation, ribosomal
structure and biogenesis].
Length = 113
Score = 112 bits (281), Expect = 2e-32
Identities = 58/114 (50%), Positives = 84/114 (73%), Gaps = 1/114 (0%)
Query: 8 HKDWQKYIKCWFNQPARKFRRRQARIKKAKEIAPRPAAGPLRPIVRCPTVRYHKRVRAGR 67
K WQ +K F+Q +K RR AR+ KA +IAPRP A ++P VR PT +Y+++VRAGR
Sbjct: 1 RKHWQLRVKVHFDQAGKKVSRRNARLTKAAKIAPRPKA-LVKPPVRAPTGKYNRKVRAGR 59
Query: 68 GFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVFP 121
GF+L E++ AGL+AR AR++GIAVD RRR+++ E+ + ++R+KE K+IVFP
Sbjct: 60 GFSLGELKAAGLSARKARTLGIAVDHRRRNRNPENFEALVKRIKELLEKIIVFP 113
>gnl|CDD|183397 PRK12277, PRK12277, 50S ribosomal protein L13e; Provisional.
Length = 83
Score = 44.4 bits (105), Expect = 1e-06
Identities = 28/76 (36%), Positives = 44/76 (57%), Gaps = 9/76 (11%)
Query: 47 PLRPIVRCPTVRYH-----KRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSME 101
P + IV+ P R+ K R GRGF++ E+ AGL+ + AR +GI VD RR++ E
Sbjct: 7 PPKAIVKRPNYRFEYGGKRKDKRIGRGFSIGELEAAGLDIKNARKLGIRVDKRRKTVHEE 66
Query: 102 SLQLNIQRLKEYKSKL 117
N++ LK++ +L
Sbjct: 67 ----NVEALKKFLEQL 78
>gnl|CDD|119322 cd06580, TM_PBP1_transp_TpRbsC_like, Transmembrane subunit (TM) of
Treponema pallidum (Tp) RbsC-1, RbsC-2 and related
proteins. This is a functionally uncharacterized
subgroup of TMs which belong to a larger group of TMs of
Periplasmic Binding Protein (PBP)-dependent ATP-Binding
Cassette (ABC) transporters, which are mainly involved
in the uptake of branched-chain amino acids (AAs) or in
the uptake of monosaccharides including ribose,
galactose, and arabinose, and which generally bind type
1 PBPs. PBP-dependent ABC transporters consist of a PBP,
two TMs, and two cytoplasmic ABCs, and are mainly
involved in importing solutes from the environment. The
solute is captured by the PBP, which delivers it to a
gated translocation pathway formed by the two TMs. The
two ABCs bind and hydrolyze ATP and drive the transport
reaction.
Length = 234
Score = 31.3 bits (72), Expect = 0.19
Identities = 10/23 (43%), Positives = 11/23 (47%)
Query: 73 EIRGAGLNARFARSVGIAVDARR 95
+R G N R AR GI V R
Sbjct: 120 RLRAVGENPRAARYAGINVKRVR 142
>gnl|CDD|184749 PRK14566, PRK14566, triosephosphate isomerase; Provisional.
Length = 260
Score = 27.9 bits (62), Expect = 2.4
Identities = 24/118 (20%), Positives = 47/118 (39%), Gaps = 10/118 (8%)
Query: 51 IVRCPTVRYHKRVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRSKSMESLQLNIQRL 110
+V CP Y + VR E + G+ + +G ++ + +++ Q L
Sbjct: 39 VVLCPPSIYLESVRQLLEANKEALDGSLV------RMGAQNVSQHDFGAYTG-EVSGQML 91
Query: 111 KEYKSKLIVFPRREKKKLRKGEATPEERKVATQLKGPLMPIR---QSKPKSKARIPSE 165
K+ + ++ E++++ + K A K L PI +S P +AR E
Sbjct: 92 KDAGCRYVIIGHSERRRMYGETSNIVAEKFAAAQKHGLTPILCVGESGPAREARRTFE 149
>gnl|CDD|179508 PRK02944, PRK02944, OxaA-like protein precursor; Validated.
Length = 255
Score = 27.8 bits (62), Expect = 3.2
Identities = 11/23 (47%), Positives = 18/23 (78%), Gaps = 1/23 (4%)
Query: 95 RRSKSMESLQLNIQRLKE-YKSK 116
+ +K+M++LQ +Q+LKE Y SK
Sbjct: 83 KSTKAMQALQPEMQKLKEKYSSK 105
>gnl|CDD|234255 TIGR03557, F420_G6P_family, F420-dependent oxidoreductase, G6PDH
family. Members of this protein family include
F420-dependent glucose-6-phosphate dehydrogenases
(TIGR03554) and related proteins. All members of this
family come from species that synthesize coenzyme F420,
with the exception of those that belong to TIGR03885, a
clade within this family in which cofactor binding may
instead be directed to FMN [Unknown function, Enzymes of
unknown specificity].
Length = 316
Score = 27.7 bits (62), Expect = 3.5
Identities = 14/42 (33%), Positives = 19/42 (45%), Gaps = 4/42 (9%)
Query: 47 PLRPIVRCPTVRYHKRVRAGRGFTLEEIRGAGLNARFARSVG 88
PL V CPT+RYH + A T + + RF +G
Sbjct: 64 PLTTAVTCPTMRYHPAIVAQAAATSAVL----SDGRFTLGLG 101
>gnl|CDD|153244 cd06551, LPLAT, Lysophospholipid acyltransferases (LPLATs) of
glycerophospholipid biosynthesis. Lysophospholipid
acyltransferase (LPLAT) superfamily members are
acyltransferases of de novo and remodeling pathways of
glycerophospholipid biosynthesis. These proteins
catalyze the incorporation of an acyl group from either
acylCoAs or acyl-acyl carrier proteins (acylACPs) into
acceptors such as glycerol 3-phosphate, dihydroxyacetone
phosphate or lyso-phosphatidic acid. Included in this
superfamily are LPLATs such as glycerol-3-phosphate
1-acyltransferase (GPAT, PlsB),
1-acyl-sn-glycerol-3-phosphate acyltransferase (AGPAT,
PlsC), lysophosphatidylcholine acyltransferase 1
(LPCAT-1), lysophosphatidylethanolamine acyltransferase
(LPEAT, also known as, MBOAT2, membrane-bound
O-acyltransferase domain-containing protein 2), lipid A
biosynthesis lauroyl/myristoyl acyltransferase,
2-acylglycerol O-acyltransferase (MGAT),
dihydroxyacetone phosphate acyltransferase (DHAPAT, also
known as 1 glycerol-3-phosphate O-acyltransferase 1) and
Tafazzin (the protein product of the Barth syndrome
(TAZ) gene).
Length = 187
Score = 27.0 bits (60), Expect = 4.6
Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 2/71 (2%)
Query: 83 FARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLIVFP--RREKKKLRKGEATPEERKV 140
F R +VD + +SL+ + L + S + +FP R ++ R + P +
Sbjct: 70 FTRLGAFSVDRDSPRSAAKSLKYVARLLSKPGSVVWIFPEGTRTRRDKRPLQFKPGVAHL 129
Query: 141 ATQLKGPLMPI 151
A + P++P+
Sbjct: 130 AEKAGVPIVPV 140
>gnl|CDD|216819 pfam01973, MAF_flag10, Protein of unknown function DUF115. This
family of archaebacterial proteins has no known
function.
Length = 170
Score = 26.8 bits (60), Expect = 5.8
Identities = 5/19 (26%), Positives = 11/19 (57%)
Query: 102 SLQLNIQRLKEYKSKLIVF 120
SL ++ LK+ + K ++
Sbjct: 35 SLDKHLPLLKKNRDKAVII 53
>gnl|CDD|200328 TIGR03819, heli_sec_ATPase, helicase/secretion neighborhood ATPase.
Members of this protein family comprise a distinct
clade of putative ATPase associated with an integral
membrane complex likely to act in pilus formation,
secretion, or conjugal transfer. The association of most
members with a nearby gene for a DEAH-box helicase
suggests a role in conjugal transfer.
Length = 340
Score = 26.9 bits (60), Expect = 6.2
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 62 RVRAGRGFTLEEIRGAGLNARFARSVGIAVDARRRS 97
RV R FTL+E+ AG + A+ A R +
Sbjct: 145 RVPRRRTFTLDELVAAGTIPPGVARLLRALVAARLA 180
>gnl|CDD|225324 COG2604, COG2604, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 594
Score = 26.9 bits (60), Expect = 6.3
Identities = 7/19 (36%), Positives = 12/19 (63%)
Query: 102 SLQLNIQRLKEYKSKLIVF 120
SL+ + LK+Y+ K +F
Sbjct: 235 SLEKQLPLLKKYQDKATIF 253
>gnl|CDD|224452 COG1535, EntB, Isochorismate hydrolase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 218
Score = 26.3 bits (58), Expect = 8.0
Identities = 19/83 (22%), Positives = 35/83 (42%), Gaps = 13/83 (15%)
Query: 100 MESLQLNIQRLKEY--KSKLIVFPRREKKKLRKGEATPEERKVATQLKGPLMPIRQSKPK 157
ME L NI +L+ + ++ + V + GE +PE+R + GP + + K
Sbjct: 53 MEQLIANIAKLRIWCKQAGIPVV-----YTAQPGEQSPEDRALLKDFWGPGLTASPEQQK 107
Query: 158 SKARIPSEA------EKKFSAFQ 174
+ A + ++SAF
Sbjct: 108 VVDELAPGADDTVLTKWRYSAFH 130
>gnl|CDD|226196 COG3670, COG3670, Lignostilbene-alpha,beta-dioxygenase and related
enzymes [Secondary metabolites biosynthesis, transport,
and catabolism].
Length = 490
Score = 26.6 bits (59), Expect = 9.2
Identities = 8/25 (32%), Positives = 14/25 (56%)
Query: 111 KEYKSKLIVFPRREKKKLRKGEATP 135
E ++++V PR ++R EA P
Sbjct: 270 PELPTRILVLPREGDSEIRWFEAEP 294
>gnl|CDD|237182 PRK12727, PRK12727, flagellar biosynthesis regulator FlhF;
Provisional.
Length = 559
Score = 26.5 bits (58), Expect = 9.6
Identities = 15/36 (41%), Positives = 22/36 (61%), Gaps = 3/36 (8%)
Query: 83 FARSVGIAVDARRRSKSMESLQLNIQRLKEYKSKLI 118
+ R +GIAV + S ESL ++RL++YK LI
Sbjct: 402 YGRQLGIAV---HEADSAESLLDLLERLRDYKLVLI 434
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
0.322 0.134 0.396
Gapped
Lambda K H
0.267 0.0720 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,270,247
Number of extensions: 866736
Number of successful extensions: 1052
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1043
Number of HSP's successfully gapped: 45
Length of query: 178
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 87
Effective length of database: 6,901,388
Effective search space: 600420756
Effective search space used: 600420756
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 (21.9 bits)
S2: 56 (25.4 bits)