RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= 038172
(323 letters)
>gnl|CDD|240267 PTZ00103, PTZ00103, 60S ribosomal protein L3; Provisional.
Length = 390
Score = 527 bits (1359), Expect = 0.0
Identities = 218/303 (71%), Positives = 258/303 (85%), Gaps = 5/303 (1%)
Query: 21 MSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDV 80
MSHRKFEHPRHGSLGFLPRKR RHRG++++FPKDDP++P LTAF+GYKAGMTHIVRDV
Sbjct: 1 MSHRKFEHPRHGSLGFLPRKRCRRHRGRIRSFPKDDPTQPPHLTAFMGYKAGMTHIVRDV 60
Query: 81 EKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYK 140
++PGSKLHKKE EAVTIIE PPM+VVG+VGY +TPRGLR+L TVWA HLS+E RRRFYK
Sbjct: 61 DRPGSKLHKKEVVEAVTIIEAPPMVVVGIVGYRETPRGLRALTTVWAHHLSDEFRRRFYK 120
Query: 141 NWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAH 200
NW KSKKKAFTKY K T KK+ + L++IKKY SV+RV+AHTQ K+ L QKKAH
Sbjct: 121 NWYKSKKKAFTKYKKFAAT---KKAEERTLKRIKKYCSVIRVIAHTQPSKLP-LGQKKAH 176
Query: 201 LMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTR 260
+MEIQVNGG++AEKVD+A EK++PVD+VFQ++EMID+IGVTKG G+EGVV RWGVTR
Sbjct: 177 VMEIQVNGGSVAEKVDFAKSLLEKEVPVDSVFQQNEMIDVIGVTKGHGFEGVVKRWGVTR 236
Query: 261 LPRKTHRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQESHTGIT 320
LPRKTHRGLRKVACIGAWHPARV +TV RAGQ+GYHHRTE+NKK+Y++G + + T
Sbjct: 237 LPRKTHRGLRKVACIGAWHPARVQYTVPRAGQHGYHHRTELNKKIYRIGVAE-DPNNATT 295
Query: 321 EFD 323
E D
Sbjct: 296 EAD 298
>gnl|CDD|235260 PRK04231, rpl3p, 50S ribosomal protein L3P; Reviewed.
Length = 337
Score = 280 bits (719), Expect = 2e-93
Identities = 120/294 (40%), Positives = 174/294 (59%), Gaps = 19/294 (6%)
Query: 23 HRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEK 82
RK PR GSL F PRKRA +++++P+ D +P +L F GYKAGMTH++ ++
Sbjct: 1 MRKIHRPRRGSLAFSPRKRAKSIVPRIRSWPEID-GEP-KLLGFAGYKAGMTHVIMIDDR 58
Query: 83 PGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNW 142
P S KE VT++ETPPM V + Y K P GL+ L VWA+ L +E+ RR
Sbjct: 59 PNSPTEGKEIFVPVTVLETPPMRVAAIRAYEKDPYGLKVLTEVWAEDLDKELERRI---- 114
Query: 143 CKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLM 202
KK + K + KI VRV+ HTQ + + G+ +KK +M
Sbjct: 115 -TLPKKDEK------KKAFEKLLKLLEEGKIVD----VRVIVHTQPKLVTGVPKKKPEIM 163
Query: 203 EIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLP 262
EI++ GG++ E+++YA K+I + VF++ +++D+I VTKGKG++GVV RWGV LP
Sbjct: 164 EIRIGGGSVEERLEYAKELLGKEISISDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLP 223
Query: 263 RKTHR--GLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQE 314
RK R G R + +G W+P+RV +TV +AGQ G+H RTE NK++ K+G G E
Sbjct: 224 RKHKRRGGSRHIGTLGPWNPSRVMWTVPQAGQMGFHQRTEYNKRILKIGDDGDE 277
>gnl|CDD|234286 TIGR03626, L3_arch, archaeal ribosomal protein L3. This model
describes exclusively the archaeal class of ribosomal
protein L3. A separate model (TIGR03625) describes the
bacterial/organelle form, and both belong to Pfam family
pfam00297. Eukaryotic proteins are excluded from this
model [Protein synthesis, Ribosomal proteins: synthesis
and modification].
Length = 330
Score = 263 bits (675), Expect = 7e-87
Identities = 115/289 (39%), Positives = 173/289 (59%), Gaps = 20/289 (6%)
Query: 28 HPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRLTAFLGYKAGMTHIVRDVEKPGSKL 87
PR GSL F PRKRA R +++++P+ D +L F GYKAGMTH++ ++ S
Sbjct: 2 RPRRGSLAFSPRKRAKRIVPRIRSWPEVD--GEPKLQGFAGYKAGMTHVIMVDDRKNSPT 59
Query: 88 HKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKK 147
KE VT++E PP+ V + Y K P GL+ L VWA +L +E+ R+
Sbjct: 60 EGKEISVPVTVLEAPPLRVAAIRAYGKDPYGLKVLTEVWANNLDKELSRKI--------- 110
Query: 148 KAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVN 207
K Y+ +E + I+ E ++ A VR++ HTQ + + G+ +KK +MEI++
Sbjct: 111 ----TLPKNYDVEEKLEKIE---ELLENDADDVRLIVHTQPKLVTGVPKKKPEIMEIRIG 163
Query: 208 GGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKT-- 265
GG++ E+ +YA K+I V VF++ +++D+I VTKGKG++GVV RWGV LPRK
Sbjct: 164 GGSVEERFEYALSILGKEISVSDVFKEGQLVDVIAVTKGKGFQGVVKRWGVKLLPRKHKR 223
Query: 266 HRGLRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKLGKGGQE 314
+G R + +G W P+RV +TV +AGQ GYH RTE NK++ K+G+ G E
Sbjct: 224 RKGGRHIGTLGPWTPSRVRWTVPQAGQMGYHQRTEYNKRILKIGEDGDE 272
>gnl|CDD|144036 pfam00297, Ribosomal_L3, Ribosomal protein L3.
Length = 199
Score = 214 bits (546), Expect = 2e-69
Identities = 99/242 (40%), Positives = 118/242 (48%), Gaps = 66/242 (27%)
Query: 70 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLNTVWAQH 129
KAGMTHI KK E VT+IE PPM+VV V Y
Sbjct: 1 KAGMTHIF---------TEKKGVLEPVTVIEVPPMVVVQVKTYE---------------- 35
Query: 130 LSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIR 189
ET++G K+IQ LE IKKY V RVL HTQ R
Sbjct: 36 ----------------------------ETNDGYKAIQVGLESIKKYRVVKRVLGHTQKR 67
Query: 190 KMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIGVTKGKGY 249
KAH+ME +VNGG E + I V VF++ E +D+ GVTKGKG+
Sbjct: 68 GTP----PKAHVMEFRVNGGEEFEP--------GQTIAVSDVFREGEYVDVTGVTKGKGF 115
Query: 250 EGVVTRWGVTRLPRKTHRG-LRKVACIGAWHPARVSFTVARAGQNGYHHRTEMNKKVYKL 308
+GV+ RWG RLPRK RG RK IGAWHP RV V AGQ G HHRTE N K+Y++
Sbjct: 116 QGVMKRWGFKRLPRKHGRGYHRKPGSIGAWHPGRVFPGVKMAGQMGNHHRTEQNLKIYRI 175
Query: 309 GK 310
+
Sbjct: 176 DQ 177
>gnl|CDD|223165 COG0087, RplC, Ribosomal protein L3 [Translation, ribosomal
structure and biogenesis].
Length = 218
Score = 155 bits (394), Expect = 3e-46
Identities = 71/250 (28%), Positives = 98/250 (39%), Gaps = 69/250 (27%)
Query: 63 LTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSL 122
+ FLGYK GMTH+ + + VT+IE PP +VV V Y G R++
Sbjct: 1 MLGFLGYKVGMTHVFDE----------RGISVPVTVIEVPPNVVVQVKTYETD--GYRAV 48
Query: 123 NTVWAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRV 182
V A +K V +
Sbjct: 49 -QVGAGD--------------------------------------------RKAKRVNKP 63
Query: 183 LAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAVFQKDEMIDIIG 242
L K + K HL E +V GG +AEK + ++I VD VF++ E++D+ G
Sbjct: 64 LVGHFA---KAGVKPKRHLAEFRVGGGDVAEKFEVG-----QEITVD-VFKEGELVDVTG 114
Query: 243 VTKGKGYEGVVTRWGVTRLPRKTHRGL--RKVACIG-AWHPARVSFTVARAGQNGYHHRT 299
VTKGKG++GV+ RWG P L R+ IG P RV AG G T
Sbjct: 115 VTKGKGFQGVMKRWGFKGGPASHGSSLSHRRPGSIGQRQTPGRVFKGKKMAGHMGNERVT 174
Query: 300 EMNKKVYKLG 309
N +V K+
Sbjct: 175 VQNLEVVKVD 184
>gnl|CDD|234564 PRK00001, rplC, 50S ribosomal protein L3; Validated.
Length = 210
Score = 45.1 bits (108), Expect = 1e-05
Identities = 23/63 (36%), Positives = 35/63 (55%), Gaps = 6/63 (9%)
Query: 225 QIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGAWH-P 280
+I VD +F+ + +D+ G +KGKG+ GV+ R + P +H R R+ IGA P
Sbjct: 94 EITVD-IFEAGQKVDVTGTSKGKGFAGVIKRHNFSGGP-ASHGNSRSHRRPGSIGARQTP 151
Query: 281 ARV 283
RV
Sbjct: 152 GRV 154
>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial. This
model describes bacterial (and mitochondrial and
chloroplast) class of ribosomal protein L3. A separate
model describes the archaeal form, where both belong to
Pfam family pfam00297. The name is phrased to meet the
needs of bacterial genome annotation. Organellar forms
typically will have transit peptides, N-terminal to the
region modeled here.
Length = 202
Score = 43.6 bits (104), Expect = 4e-05
Identities = 27/87 (31%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 224 KQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH---RGLRKVACIGA--W 278
+I VD +F+ + +D+ G +KGKG+ GV+ R + P +H + R IG
Sbjct: 92 DEITVD-IFEAGQKVDVTGTSKGKGFAGVMKRHNFSGGP-ASHGNSKSHRAPGSIGQRQT 149
Query: 279 HPARVSFTVARAGQNGYHHRTEMNKKV 305
P RV AG G T N +V
Sbjct: 150 -PGRVFKGKKMAGHMGNERVTVQNLEV 175
>gnl|CDD|177065 CHL00143, rpl3, ribosomal protein L3; Validated.
Length = 207
Score = 35.8 bits (83), Expect = 0.017
Identities = 28/88 (31%), Positives = 43/88 (48%), Gaps = 5/88 (5%)
Query: 224 KQIPVDAVFQKDEMIDIIGVTKGKGYEGVVTRWGVTRLPRKTH--RGLRKVACIGA-WHP 280
+ + VDA F +++++ G + GKG+ G+ R +R P TH + R IGA P
Sbjct: 95 QPLTVDA-FSVGQLVNVSGKSIGKGFAGLQKRHNFSRGP-MTHGSKNHRAPGSIGAGTTP 152
Query: 281 ARVSFTVARAGQNGYHHRTEMNKKVYKL 308
RV AG+ G T N K+ K+
Sbjct: 153 GRVYPGKKMAGRLGNKKVTIKNLKILKV 180
>gnl|CDD|181414 PRK08410, PRK08410, 2-hydroxyacid dehydrogenase; Provisional.
Length = 311
Score = 32.3 bits (74), Expect = 0.33
Identities = 21/69 (30%), Positives = 28/69 (40%), Gaps = 18/69 (26%)
Query: 105 MVVGVVGYVKTPRGLRSLNTVWAQH-----LSEEVRRRFYKNWCKSKKKA----FTKYSK 155
V V GY S +V AQH LS R +Y + KS + + FT S+
Sbjct: 88 AVKNVAGY--------STESV-AQHTFAMLLSLLGRINYYDRYVKSGEYSESPIFTHISR 138
Query: 156 QYETDEGKK 164
+GKK
Sbjct: 139 PLGEIKGKK 147
>gnl|CDD|199206 cd08962, GatD, GatD subunit of archaeal Glu-tRNA amidotransferase.
GatD is involved in the alternative synthesis of
Gln-tRNA(Gln) in archaea via the transamidation of
incorrectly charged Glu-tRNA(Gln). GatD is active as a
dimer, and it provides the amino group required for this
reaction. GatD is related to bacterial L-asparaginases
(amidohydrolases), which catalyze the hydrolysis of
asparagine to aspartic acid and ammonia. This CD spans
both the L-asparaginase_like domain and an N-terminal
supplementary domain.
Length = 402
Score = 31.8 bits (73), Expect = 0.46
Identities = 24/79 (30%), Positives = 33/79 (41%), Gaps = 13/79 (16%)
Query: 163 KKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF 222
SI ++E I+K L +I K GL + I GGTIA +VDY G
Sbjct: 41 DISI-EEIELIEKGEKPKPELGE-EIEKKPGLPKVS-----IISTGGTIASRVDYRTG-- 91
Query: 223 EKQIPVDAVFQKDEMIDII 241
V F +E++ I
Sbjct: 92 ----AVSPAFTAEELLRAI 106
>gnl|CDD|218585 pfam05424, Duffy_binding, Duffy binding domain. This domain is
found in Plasmodium Duffy binding proteins. Plasmodium
vivax and Plasmodium knowlesi merozoites invade human
erythrocytes that express Duffy blood group surface
determinants. The Duffy receptor family is localised in
micronemes, an organelle found in all organisms of the
phylum Apicomplexa.
Length = 276
Score = 31.2 bits (71), Expect = 0.70
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 139 YKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYAS 178
YK W +KKK + K K+Y+ + + + + + KYA
Sbjct: 235 YKKWIDNKKKEWDKQKKKYKKYKKRNNKKNYSDIKDKYAK 274
>gnl|CDD|222906 PHA02606, 5.1, hypothetical protein; Provisional.
Length = 179
Score = 30.6 bits (69), Expect = 0.71
Identities = 18/80 (22%), Positives = 28/80 (35%), Gaps = 5/80 (6%)
Query: 60 PCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVV--GYVKTPR 117
P L Y+ + + ++ + G + E PP V + Y +T
Sbjct: 102 PQNLQKTFTYEVTLIYDYQEPSESGGSGSGSNSSEGAGETNPPPAPVRKTLTKVYTQTVV 161
Query: 118 GLRSLNTVWAQHLSEEVRRR 137
G S VWA L + V R
Sbjct: 162 GNWS---VWANQLRDYVYRG 178
>gnl|CDD|188234 TIGR02591, cas_Csh1, CRISPR-associated protein Cas8b/Csh1, subtype
I-B/HMARI. This domain is found in the C-terminal 2/3
of a family of CRISPR associated proteins of the Hmari
subtype. Except for the two sequences from halophilic
archaea this domain contains a pair of CXXC motifs
[Mobile and extrachromosomal element functions, Other].
Length = 393
Score = 30.9 bits (70), Expect = 0.95
Identities = 18/130 (13%), Positives = 50/130 (38%), Gaps = 19/130 (14%)
Query: 127 AQHLSEEVRRRFY--KNWCKSKKKAFT-----KYSKQYETDEGKKSIQ--AQLEKIKKYA 177
AQ L +E ++ Y + ++K +T + + +E K K
Sbjct: 75 AQDLYKEEIKKIYEFRKNDFLQEKFYTEEAGYEIELDEDLEENKIGYYLRYDFLFYSKEK 134
Query: 178 SVVRVLAH------TQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPVDAV 231
++ + +++ K+ L++K ++ + K ++ +G + +
Sbjct: 135 QAEKITLYIKDVEPSRVEKILELEKKVLNVSKEDFGEL----KENWFFGQVYAFLLDNDF 190
Query: 232 FQKDEMIDII 241
F+ DE ++++
Sbjct: 191 FEDDEFLNLL 200
>gnl|CDD|220222 pfam09403, FadA, Adhesion protein FadA. FadA (Fusobacterium
adhesin A) is an adhesin which forms two alpha helices.
Length = 126
Score = 29.1 bits (65), Expect = 1.4
Identities = 14/49 (28%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 128 QHLSEEVRRRFYKNWCKSKKKAFTKYSKQYETD-EGKKSIQAQLEKIKK 175
L EE + RF+K+ K K + +Y + E K+ ++ EKI++
Sbjct: 76 AKLKEESKTRFHKDEYKKLLKRYDEYLNKLEQKITDKEQQISEFEKIQE 124
>gnl|CDD|219668 pfam07964, Red1, Rec10 / Red1. Rec10 / Red1 is involved in meiotic
recombination and chromosome segregation during
homologous chromosome formation. This protein localises
to the synaptonemal complex in S. cerevisiae and the
analogous structures (linear elements) in S. pombe. This
family is currently only found in fungi.
Length = 706
Score = 30.2 bits (68), Expect = 1.6
Identities = 30/133 (22%), Positives = 46/133 (34%), Gaps = 15/133 (11%)
Query: 70 KAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVK----TPRGLRSLNTV 125
G H+ G KL K T E I P VV V Y R + L+T+
Sbjct: 398 VTGDPHLKDPTIIAGKKLMNKLTSE---KINNPV-KVVKVSKYKGNKSEKKRDINVLDTI 453
Query: 126 WAQHLSEEVRRRFYKNWCKSKKKAFTKYSKQ------YETDEGKKSIQAQLEKIKKYASV 179
+A +S+E R+ ++K K F + + KS + K A++
Sbjct: 454 FASPVSKE-LRKKVGKSKQTKLKNFKPVPNKSKKQLANNNSQNIKSKKVVKAKTNNKANL 512
Query: 180 VRVLAHTQIRKMK 192
V + K
Sbjct: 513 QDVGECSSPPNNK 525
>gnl|CDD|235245 PRK04183, PRK04183, glutamyl-tRNA(Gln) amidotransferase subunit D;
Validated.
Length = 419
Score = 30.2 bits (69), Expect = 1.7
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 11/79 (13%)
Query: 163 KKSIQAQLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFF 222
A++E ++K + +I K GL I GGTIA KVDY G
Sbjct: 44 DIDKIAEIELLEKGEKPKQEPPPKEIEKDPGLPNVS-----ILSTGGTIASKVDYRTG-- 96
Query: 223 EKQIPVDAVFQKDEMIDII 241
V F ++++ +
Sbjct: 97 ----AVTPAFTAEDLLRAV 111
>gnl|CDD|223416 COG0339, Dcp, Zn-dependent oligopeptidases [Amino acid transport
and metabolism].
Length = 683
Score = 29.9 bits (68), Expect = 1.8
Identities = 11/38 (28%), Positives = 21/38 (55%), Gaps = 3/38 (7%)
Query: 138 FYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKK 175
F +NWC + + KY++ Y+T G+ + L+K+
Sbjct: 507 FMENWC-WEPEVLAKYARHYQT--GEPLPKELLDKMLA 541
>gnl|CDD|233353 TIGR01311, glycerol_kin, glycerol kinase. This model describes
glycerol kinase, a member of the FGGY family of
carbohydrate kinases [Energy metabolism, Other].
Length = 493
Score = 29.9 bits (68), Expect = 2.2
Identities = 9/44 (20%), Positives = 18/44 (40%)
Query: 107 VGVVGYVKTPRGLRSLNTVWAQHLSEEVRRRFYKNWCKSKKKAF 150
VG ++ L + + + EE R Y W ++ K++
Sbjct: 448 VGYWKSLEEIEALWRVEKTFEPEMDEEEREARYAGWKEAVKRSL 491
>gnl|CDD|215166 PLN02295, PLN02295, glycerol kinase.
Length = 512
Score = 29.3 bits (66), Expect = 3.2
Identities = 10/28 (35%), Positives = 17/28 (60%)
Query: 123 NTVWAQHLSEEVRRRFYKNWCKSKKKAF 150
T + L EE R + Y +WCK+ +++F
Sbjct: 478 TTTFRPKLDEEERAKRYASWCKAVERSF 505
>gnl|CDD|233752 TIGR02153, gatD_arch, glutamyl-tRNA(Gln) amidotransferase, subunit
D. This peptide is found only in the Archaea. It is
part of a heterodimer, with GatE (TIGR00134), that acts
as an amidotransferase on misacylated Glu-tRNA(Gln) to
produce Gln-tRNA(Gln). The analogous amidotransferase
found in bacteria is the GatABC system, although GatABC
homologs in the Archaea appear to act instead on
Asp-tRNA(Asn) [Protein synthesis, tRNA aminoacylation].
Length = 404
Score = 29.3 bits (66), Expect = 3.3
Identities = 14/59 (23%), Positives = 26/59 (44%), Gaps = 3/59 (5%)
Query: 188 IRKMKGLKQKKAHLMEIQV--NGGTIAEKVDYAYGFFEKQIPVDAVFQK-DEMIDIIGV 243
+KK L ++ + GGTIA +VDY G + + + E+++I +
Sbjct: 49 EVPPPAEIEKKPGLPKVSIISTGGTIASRVDYETGAVYPAFTAEELARAVPELLEIANI 107
>gnl|CDD|172778 PRK14290, PRK14290, chaperone protein DnaJ; Provisional.
Length = 365
Score = 29.1 bits (65), Expect = 3.4
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 147 KKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHTQIRKM 191
KKAF + +K++ D + EK K+ + VL+ Q R+
Sbjct: 21 KKAFRELAKKWHPDLHPGNKAEAEEKFKEISEAYEVLSDPQKRRQ 65
>gnl|CDD|187822 cd09691, Cas8b_I-B, CRISPR/Cas system-associated protein Cas8b.
CRISPR (Clustered Regularly Interspaced Short
Palindromic Repeats) and associated Cas proteins
comprise a system for heritable host defense by
prokaryotic cells against phage and other foreign DNA;
Zn-finger domain containing protein, distant homologs of
Cas8 proteins; signature gene for I-B subtype; also
known as Csh1 family.
Length = 381
Score = 29.0 bits (65), Expect = 3.7
Identities = 19/133 (14%), Positives = 45/133 (33%), Gaps = 18/133 (13%)
Query: 122 LNTVWAQHLSEEVRRRFYKNWCKSKKKAFT----------KYSKQYET---DEGKKSIQA 168
+ VWA + ++ ++ + E D +
Sbjct: 64 IPGVWAFDTKKSKIKKIFEFKNTQFNINLREIKGLEEQISEDFTDGEGLRVDFLFYEKEK 123
Query: 169 QLEKIKKYASVVRVLAHTQIRKMKGLKQKKAHLMEIQVNGGTIAEKVDYAYGFFEKQIPV 228
EKI Y ++ + ++I K+ L++K + + + +D Y F +
Sbjct: 124 AAEKIVLY---IKDVEPSRIEKILELEKKVENYNKEIGEIENLNLGLDNIY--FLIPLSK 178
Query: 229 DAVFQKDEMIDII 241
D F+ E ++++
Sbjct: 179 DNFFEDREFLNLL 191
>gnl|CDD|240179 cd05379, SCP_bacterial, SCP_bacterial: SCP-like extracellular
protein domain, as found in bacteria and archaea. The
wider family of SCP containing proteins includes plant
pathogenesis-related protein 1 (PR-1), CRISPs,
mammalian cysteine-rich secretory proteins, and
allergen 5 from vespid venom. It has been proposed that
SCP domains may function as endopeptidases. Little is
known about the biological roles of the bacterial and
archaeal SCP domains.
Length = 122
Score = 27.7 bits (62), Expect = 4.1
Identities = 17/46 (36%), Positives = 21/46 (45%), Gaps = 5/46 (10%)
Query: 3 LPALEHNESVAAAAQR--RRMSHRK-FEHPRHGSLGFLPRKRAARH 45
LP L + ++AAAAQ R M+ F H G G P RA
Sbjct: 17 LPPLTWDPALAAAAQAHARDMAANGYFSH--TGPDGSSPFDRARAA 60
>gnl|CDD|183859 PRK13103, secA, preprotein translocase subunit SecA; Reviewed.
Length = 913
Score = 28.0 bits (62), Expect = 7.9
Identities = 23/78 (29%), Positives = 32/78 (41%), Gaps = 18/78 (23%)
Query: 119 LRSLNTVWAQHLS------EEVRRRFYKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEK 172
LR L+ +W HLS + R Y K KQ E Q L+
Sbjct: 768 LRVLDDLWKDHLSTMDHLRHGIHLRGYAQ----------KNPKQEYKRESFTLFQELLDS 817
Query: 173 IKKYASVVRVLAHTQIRK 190
IK+ +RVL+H Q+R+
Sbjct: 818 IKR--DTIRVLSHVQVRR 833
>gnl|CDD|218079 pfam04420, CHD5, CHD5-like protein. Members of this family are
probably coiled-coil proteins that are similar to the
CHD5 (Congenital heart disease 5) protein. In
Saccharomyces cerevisiae this protein localises to the
ER and is thought to play a homeostatic role.
Length = 161
Score = 27.2 bits (61), Expect = 8.0
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 3/48 (6%)
Query: 139 YKNWCKSKKKAFTKYSKQYETDEGKKSIQAQLEKIKKYASVVRVLAHT 186
+ W K +K K + + E + KK + AQ K K +R+L T
Sbjct: 65 FAKWAKLNRK-LDKLTDELE--KLKKELTAQKSKFKWVLKKLRLLLTT 109
>gnl|CDD|180071 PRK05424, rplA, 50S ribosomal protein L1; Validated.
Length = 230
Score = 27.4 bits (62), Expect = 8.0
Identities = 12/23 (52%), Positives = 15/23 (65%), Gaps = 1/23 (4%)
Query: 98 IIETPPMM-VVGVVGYVKTPRGL 119
+I TP MM VG +G + PRGL
Sbjct: 113 VIATPDMMGKVGKLGRILGPRGL 135
>gnl|CDD|215809 pfam00232, Glyco_hydro_1, Glycosyl hydrolase family 1.
Length = 454
Score = 28.1 bits (63), Expect = 8.2
Identities = 27/123 (21%), Positives = 40/123 (32%), Gaps = 7/123 (5%)
Query: 3 LPALEHNESVAAAAQRRR-MSHRKFEHPRHGSLGFLPR--KRAARHRGKVKAFPKDDPSK 59
P AA+R + F P G P + RG + F ++D
Sbjct: 226 YPLSPSPPDDVEAAERADQFHNGWFLDPVF--RGDYPEEMREIVGERGGLPNFTEEDKEL 283
Query: 60 PCRLTAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGL 119
FLG + VR+ +P + E + E P G++ P GL
Sbjct: 284 IKGPYDFLGLNYYTSRRVRNDPEPSNIPSYTEGIGMDS--EVNPSWPSTDWGWIIYPEGL 341
Query: 120 RSL 122
R L
Sbjct: 342 RDL 344
>gnl|CDD|140276 PTZ00249, PTZ00249, variable surface protein Vir28; Provisional.
Length = 516
Score = 27.7 bits (61), Expect = 9.8
Identities = 31/135 (22%), Positives = 42/135 (31%), Gaps = 16/135 (11%)
Query: 4 PALEHNESVAAAAQRRRMSHRKFEHPRHGSLGFLPRKRAARHRGKVKAFPKDDPSKPCRL 63
P E ++V A A RR + P+H S H +P
Sbjct: 217 PPREEQKAVTAHAHRRISGEAR--PPKHISF-----SSPHAHGRPPVETRPPNPVSVSSP 269
Query: 64 TAFLGYKAGMTHIVRDVEKPGSKLHKKETCEAVTIIETPPMMVVGVVGYVKTPRGLRSLN 123
A G G TH V P SK H + + TP V GY +GL
Sbjct: 270 QAH-GRHPGETHTPPLVTVPSSKAHDRNPVQT----PTPT----SVSGYSSQAKGLEKQA 320
Query: 124 TVWAQHLSEEVRRRF 138
++ S +F
Sbjct: 321 GGESERTSSVPSEQF 335
>gnl|CDD|116512 pfam07900, DUF1670, Protein of unknown function (DUF1670). The
hypothetical eukaryotic proteins found in this family
are of unknown function.
Length = 220
Score = 27.4 bits (61), Expect = 9.9
Identities = 10/31 (32%), Positives = 14/31 (45%)
Query: 146 KKKAFTKYSKQYETDEGKKSIQAQLEKIKKY 176
K+K Y K Y+T E + E I +Y
Sbjct: 153 KRKIVELYLKGYQTSEIARLTNHSPESIDRY 183
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
0.319 0.134 0.402
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,672,875
Number of extensions: 1609064
Number of successful extensions: 1549
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1527
Number of HSP's successfully gapped: 47
Length of query: 323
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 226
Effective length of database: 6,635,264
Effective search space: 1499569664
Effective search space used: 1499569664
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: 59 (26.4 bits)