RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6284
(270 letters)
>gnl|CDD|238230 cd00392, Ribosomal_L13, Ribosomal protein L13. Protein L13, a
large ribosomal subunit protein, is one of five proteins
required for an early folding intermediate of 23S rRNA
in the assembly of the large subunit. L13 is situated on
the bottom of the large subunit, near the polypeptide
exit site. It interacts with proteins L3 and L6, and
forms an extensive network of interactions with 23S
rRNA. L13 has been identified as a homolog of the human
breast basic conserved protein 1 (BBC1), a protein
identified through its increased expression in breast
cancer. L13 expression is also upregulated in a variety
of human gastrointestinal cancers, suggesting it may
play a role in the etiology of a variety of human
malignancies.
Length = 114
Score = 111 bits (279), Expect = 6e-31
Identities = 37/84 (44%), Positives = 52/84 (61%)
Query: 17 WHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIALPGYEWKKRAY 76
WH+ DAK Q A ++K L G+HKP Y P DCGD+V+V+N+ I + G +W+++ Y
Sbjct: 1 WHVIDAKGQVLGRLASKVAKLLLGKHKPTYTPHVDCGDYVVVVNAEKIVITGKKWRQKVY 60
Query: 77 FHHTGYPGGVSWTLAWQLHEIDPT 100
+ HTGYPGG+ A LH P
Sbjct: 61 YRHTGYPGGLKNPTAGPLHPRAPE 84
>gnl|CDD|201314 pfam00572, Ribosomal_L13, Ribosomal protein L13.
Length = 128
Score = 107 bits (271), Expect = 1e-29
Identities = 36/84 (42%), Positives = 50/84 (59%)
Query: 17 WHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIALPGYEWKKRAY 76
WH+ DAK Q A ++K L+G+HKP Y P DCGD+V+V+N+ I L G + ++ Y
Sbjct: 1 WHVIDAKGQILGRLASKVAKLLRGKHKPTYTPHVDCGDYVVVINAEKIVLTGKKRDQKKY 60
Query: 77 FHHTGYPGGVSWTLAWQLHEIDPT 100
+ HTGYPGG+ A E P
Sbjct: 61 YRHTGYPGGLKNPTAKGPLERKPE 84
>gnl|CDD|162186 TIGR01066, rplM_bact, ribosomal protein L13, bacterial type.
This model distinguishes ribosomal protein L13 of
bacteria and organelles from its eukarytotic and
archaeal counterparts [Protein synthesis, Ribosomal
proteins: synthesis and modification].
Length = 140
Score = 78.9 bits (195), Expect = 2e-18
Identities = 30/79 (37%), Positives = 49/79 (62%)
Query: 7 VKQWNTFARIWHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIAL 66
K + R W++ DA + A +++ L+G+HKP Y P DCGD+VIV+N+ + L
Sbjct: 3 AKASDDKKRKWYVVDAAGKTLGRLASEVARLLRGKHKPTYTPHVDCGDYVIVINAEKVRL 62
Query: 67 PGYEWKKRAYFHHTGYPGG 85
G + +++ Y+ H+GYPGG
Sbjct: 63 TGKKLEQKVYYRHSGYPGG 81
>gnl|CDD|238112 cd00189, TPR, Tetratricopeptide repeat domain; typically contains
34 amino acids
[WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-
X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found
in a variety of organisms including bacteria,
cyanobacteria, yeast, fungi, plants, and humans in
various subcellular locations; involved in a variety of
functions including protein-protein interactions, but
common features in the interaction partners have not
been defined; involved in chaperone, cell-cycle,
transciption, and protein transport complexes; the
number of TPR motifs varies among proteins (1,3-11,13
15,16,19); 5-6 tandem repeats generate a right-handed
helical structure with an amphipathic channel that is
thought to accomodate an alpha-helix of a target
protein; it has been proposed that TPR proteins
preferably interact with WD-40 repeat proteins, but in
many instances several TPR-proteins seem to aggregate to
multi-protein complexes; examples of TPR-proteins
include, Cdc16p, Cdc23p and Cdc27p components of the
cyclosome/APC, the Pex5p/Pas10p receptor for peroxisomal
targeting signals, the Tom70p co-receptor for
mitochondrial targeting signals, Ser/Thr phosphatase 5C
and the p110 subunit of O-GlcNAc transferase; three
copies of the repeat are present here.
Length = 100
Score = 75.1 bits (185), Expect = 2e-17
Identities = 32/97 (32%), Positives = 46/97 (47%)
Query: 136 KEQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKL 195
GN K G + EA+E Y A++ P +A + N A + K+ Y A D +L+L
Sbjct: 4 LNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALEL 63
Query: 196 DNTYVKAYQRRAAARRSLNHFEDARKDILKVLALEPN 232
D KAY A L +E+A + K L L+PN
Sbjct: 64 DPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 47.0 bits (112), Expect = 3e-07
Identities = 25/78 (32%), Positives = 36/78 (46%)
Query: 171 NRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARKDILKVLALE 230
N + K+ +Y A +L+LD AY AAA L +E+A +D K L L+
Sbjct: 5 NLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELD 64
Query: 231 PNNKQAEIELAELNRKLN 248
P+N +A L KL
Sbjct: 65 PDNAKAYYNLGLAYYKLG 82
Score = 28.1 bits (63), Expect = 2.0
Identities = 13/48 (27%), Positives = 20/48 (41%)
Query: 201 KAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLN 248
+A L +++A + K L L+P+N A LA KL
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLG 48
>gnl|CDD|177072 CHL00159, rpl13, ribosomal protein L13; Validated.
Length = 143
Score = 73.9 bits (182), Expect = 2e-16
Identities = 35/92 (38%), Positives = 52/92 (56%), Gaps = 2/92 (2%)
Query: 15 RIWHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIALPGYEWKKR 74
R W+I DAK Q A I+ L+G++KP YHP D GD+VIV+N+ I + G + ++
Sbjct: 14 RKWYIIDAKDQTLGRLATKIASLLRGKNKPSYHPSVDTGDYVIVINAEKIKVTGNKTSQK 73
Query: 75 AYFHHTGYPGGVSWTLAWQLHEIDP--TLDKA 104
Y H+G PGG+ +L P ++KA
Sbjct: 74 FYVRHSGRPGGLKIETFEELQNRLPNRIIEKA 105
>gnl|CDD|181703 PRK09216, rplM, 50S ribosomal protein L13; Reviewed.
Length = 144
Score = 72.8 bits (180), Expect = 4e-16
Identities = 27/72 (37%), Positives = 44/72 (61%)
Query: 15 RIWHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIALPGYEWKKR 74
R W++ DA+ + A ++ L+G+HKP + P D GD VIV+N+ + L G + +
Sbjct: 13 RKWYVIDAEGKVLGRLASEVASILRGKHKPTFTPHVDTGDFVIVINAEKVKLTGKKLTDK 72
Query: 75 AYFHHTGYPGGV 86
Y+ H+GYPGG+
Sbjct: 73 IYYRHSGYPGGL 84
>gnl|CDD|233223 TIGR00990, 3a0801s09, mitochondrial precursor proteins import
receptor (72 kDa mitochondrial outermembrane protein)
(mitochondrial import receptor for the ADP/ATP carrier)
(translocase of outermembrane tom70). [Transport and
binding proteins, Amino acids, peptides and amines].
Length = 615
Score = 71.9 bits (176), Expect = 3e-14
Identities = 43/133 (32%), Positives = 65/133 (48%), Gaps = 3/133 (2%)
Query: 116 DEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALC 175
DE S + +R A KE+GNK + + +AI+ Y+ AI+ P D V+++NRA C
Sbjct: 111 DESSVANLSEEERKKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKP-DPVYYSNRAAC 169
Query: 176 FLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQ 235
+ ++ D TA+L+LD Y KA RRA A L + DA D L + +
Sbjct: 170 HNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLD-LTASCIIDGFRN 228
Query: 236 AEIELAELNRKLN 248
+ A + R L
Sbjct: 229 EQSAQA-VERLLK 240
Score = 40.4 bits (94), Expect = 8e-04
Identities = 28/103 (27%), Positives = 44/103 (42%)
Query: 146 GKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQR 205
GK EA+ + +I+ P + RA L++ + AE D +LKL++ Y
Sbjct: 345 GKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYH 404
Query: 206 RAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLN 248
RA F A KD K + L+P+ + I+L K
Sbjct: 405 RAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEG 447
Score = 33.0 bits (75), Expect = 0.15
Identities = 28/127 (22%), Positives = 50/127 (39%), Gaps = 13/127 (10%)
Query: 131 SAVYSKEQGNKLVK------EGKWGEAIEKYNVAIQTY-------PHDAVFFANRALCFL 177
S +E GN ++ E K E+ E+ A + +A+ R
Sbjct: 283 SNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKC 342
Query: 178 KMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAE 237
++ A AD + S++LD ++Y +RA+ L + A +D K L L +
Sbjct: 343 LKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIY 402
Query: 238 IELAELN 244
A+L+
Sbjct: 403 YHRAQLH 409
>gnl|CDD|223180 COG0102, RplM, Ribosomal protein L13 [Translation, ribosomal
structure and biogenesis].
Length = 148
Score = 67.3 bits (165), Expect = 5e-14
Identities = 30/80 (37%), Positives = 47/80 (58%), Gaps = 6/80 (7%)
Query: 11 NTFARIWHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIALPGYE 70
+ R W++ DA+ + A ++K L+G+HKP Y P D GD+VIV+N+ + + G
Sbjct: 9 SEVERKWYVIDAEGKVLGRLASEVAKRLRGKHKPTYTPHVDTGDYVIVINAEKVVITG-- 66
Query: 71 WKKRA---YFHHTGYPGGVS 87
KK Y+ H+GYPGG+
Sbjct: 67 -KKLTDKKYYRHSGYPGGLK 85
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 57.7 bits (140), Expect = 3e-11
Identities = 27/67 (40%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 131 SAVYSKEQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKM-KNYVSAEADC 189
+A K GN L K G + EAIE Y A++ P +A + N AL +LK+ K+Y A D
Sbjct: 2 NAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDL 61
Query: 190 TASLKLD 196
+L+LD
Sbjct: 62 EKALELD 68
Score = 49.2 bits (118), Expect = 3e-08
Identities = 20/69 (28%), Positives = 31/69 (44%), Gaps = 1/69 (1%)
Query: 164 HDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLN-HFEDARKD 222
+A N K+ +Y A +L+LD +AY A A L +E+A +D
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 223 ILKVLALEP 231
+ K L L+P
Sbjct: 61 LEKALELDP 69
Score = 26.5 bits (59), Expect = 3.8
Identities = 14/48 (29%), Positives = 23/48 (47%)
Query: 201 KAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLN 248
+A + A L +++A + K L L+P+N +A LA KL
Sbjct: 4 EALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLG 51
>gnl|CDD|177795 PLN00205, PLN00205, ribisomal protein L13 family protein;
Provisional.
Length = 191
Score = 58.7 bits (142), Expect = 2e-10
Identities = 33/95 (34%), Positives = 47/95 (49%)
Query: 7 VKQWNTFARIWHIYDAKWQNPIESAKVISKHLQGQHKPIYHPLNDCGDHVIVMNSRHIAL 66
+++ N W ++DAK Q A IS LQG+ KP Y P D GD IV+N++ I++
Sbjct: 7 LRRINLEGLRWRVFDAKGQVLGRLASQISTVLQGKDKPTYAPNRDDGDICIVLNAKDISV 66
Query: 67 PGYEWKKRAYFHHTGYPGGVSWTLAWQLHEIDPTL 101
G + + Y HTGY G + DPT
Sbjct: 67 TGRKLTDKFYRWHTGYIGHLKERSLKDQMAKDPTE 101
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 52.9 bits (127), Expect = 5e-08
Identities = 26/82 (31%), Positives = 45/82 (54%)
Query: 151 AIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAAR 210
A++ Y AI P++A +A+RA +K+ N+ A AD +++LD + KAY R+ A
Sbjct: 21 AVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTAC 80
Query: 211 RSLNHFEDARKDILKVLALEPN 232
L ++ A+ + K +L P
Sbjct: 81 MKLEEYQTAKAALEKGASLAPG 102
>gnl|CDD|233924 TIGR02552, LcrH_SycD, type III secretion low calcium response
chaperone LcrH/SycD. Genes in this family are found in
type III secretion operons. LcrH, from Yersinia is
believed to have a regulatory function in the
low-calcium response of the secretion system. The same
protein is also known as SycD (SYC = Specific Yop
Chaperone) for its chaperone role. In Pseudomonas, where
the homolog is known as PcrH, the chaperone role has
been demonstrated and the regulatory role appears to be
absent. ScyD/LcrH contains three central
tetratricopeptide-like repeats that are predicted to
fold into an all-alpha-helical array.
Length = 135
Score = 37.7 bits (88), Expect = 0.001
Identities = 16/66 (24%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 146 GKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKL--DNTYVKAY 203
++ EAI+ Y +A P D + + A C L + SA ++++ +N
Sbjct: 65 KEYEEAIDAYALAAALDPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYSEL 124
Query: 204 QRRAAA 209
+ RA A
Sbjct: 125 KERAEA 130
>gnl|CDD|234406 TIGR03939, PGA_TPR_OMP, poly-beta-1,6 N-acetyl-D-glucosamine export
porin PgaA. Members of this protein family are the
poly-beta-1,6 N-acetyl-D-glucosamine (PGA) export porin
PgaA of Gram-negative bacteria. There is no counterpart
in the poly-beta-1,6 N-acetyl-D-glucosamine biosynthesis
systems of Gram-positive bacteria such as Staphylococcus
epidermidis. The PGA polysaccharide adhesin is a
critical determinant of biofilm formation. The conserved
C-terminal domain of this outer membrane protein is
preceded by a variable number of TPR repeats.
Length = 800
Score = 39.3 bits (92), Expect = 0.002
Identities = 26/106 (24%), Positives = 42/106 (39%)
Query: 145 EGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQ 204
E +W +A+E Y +Q P++ AL A + T Y+
Sbjct: 99 EKQWDKALELYRKLLQRDPNNPDGLLGLALTLADAGKDAEALKYLKEYVARFPTDAARYE 158
Query: 205 RRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLNIP 250
A R+ DA + + L LEP+N +A +EL + +L P
Sbjct: 159 ALAYVLRAAEDHLDALQAWQQALTLEPDNPEAALELYRILTRLGAP 204
>gnl|CDD|131573 TIGR02521, type_IV_pilW, type IV pilus biogenesis/stability protein
PilW. Members of this family are designated PilF in ref
(PMID:8973346) and PilW in ref (PMID:15612916). This
outer membrane protein is required both for pilus
stability and for pilus function such as adherence to
human cells. Members of this family contain copies of
the TPR (tetratricopeptide repeat) domain.
Length = 234
Score = 37.7 bits (88), Expect = 0.003
Identities = 23/99 (23%), Positives = 44/99 (44%), Gaps = 6/99 (6%)
Query: 142 LVKEGKWGEAIEKYNVAI--QTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTY 199
L ++GK+ +A++++ AI YP A N LC LK ++ AE T +L++D
Sbjct: 109 LCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQR 168
Query: 200 VKAYQRRAAARRSLN--HFEDARKDILKVLALEPNNKQA 236
++ A ++DAR + + ++
Sbjct: 169 PES--LLELAELYYLRGQYKDARAYLERYQQTYNQTAES 205
Score = 30.4 bits (69), Expect = 0.89
Identities = 21/105 (20%), Positives = 44/105 (41%), Gaps = 8/105 (7%)
Query: 144 KEGKWGEAIEKYNVAIQTYPHDAVFFAN--RALCFLKMKNYVSAEADCTASLKLDNTYV- 200
+ G+ +A + + A+ P++ N LC + Y A +++ D Y
Sbjct: 77 QLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLC--QQGKYEQAMQQFEQAIE-DPLYPQ 133
Query: 201 --KAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAEL 243
++ + F+ A K + + L ++P ++ +ELAEL
Sbjct: 134 PARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAEL 178
>gnl|CDD|234059 TIGR02917, PEP_TPR_lipo, putative PEP-CTERM system TPR-repeat
lipoprotein. This protein family occurs in strictly
within a subset of Gram-negative bacterial species with
the proposed PEP-CTERM/exosortase system, analogous to
the LPXTG/sortase system common in Gram-positive
bacteria. This protein occurs in a species if and only
if a transmembrane histidine kinase (TIGR02916) and a
DNA-binding response regulator (TIGR02915) also occur.
The present of tetratricopeptide repeats (TPR) suggests
protein-protein interaction, possibly for the regulation
of PEP-CTERM protein expression, since many PEP-CTERM
proteins in these genomes are preceded by a proposed DNA
binding site for the response regulator.
Length = 899
Score = 35.8 bits (83), Expect = 0.024
Identities = 22/118 (18%), Positives = 40/118 (33%), Gaps = 15/118 (12%)
Query: 138 QGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLD- 196
+ + + +AI+ Y ++ P +AV N A +L++K+ A +LKL
Sbjct: 776 LAELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNNLAWLYLELKDPR-ALEYAERALKLAP 834
Query: 197 ------NTYVKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLN 248
+T + A R+L K + + P LA
Sbjct: 835 NIPAILDTLGWLLVEKGEADRALPLLR-------KAVNIAPEAAAIRYHLALALLATG 885
Score = 35.4 bits (82), Expect = 0.032
Identities = 22/96 (22%), Positives = 37/96 (38%)
Query: 138 QGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDN 197
+G+ L+ G A+ Y AI P++ A ++ + AE A LK
Sbjct: 199 KGDLLLSLGNIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEAEKHADALLKKAP 258
Query: 198 TYVKAYQRRAAARRSLNHFEDARKDILKVLALEPNN 233
A+ +A ++EDAR+ + L P
Sbjct: 259 NSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEY 294
Score = 33.9 bits (78), Expect = 0.089
Identities = 20/98 (20%), Positives = 34/98 (34%), Gaps = 4/98 (4%)
Query: 142 LVKEGKWGEAIEKYNVAIQTYP--HDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTY 199
+ E ++ EA + + P DA+ + L + N A A ++ L
Sbjct: 169 ALAENRFDEARALIDEVLTADPGNVDALLL--KGDLLLSLGNIELALAAYRKAIALRPNN 226
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAE 237
+ A FE+A K +L PN+ A
Sbjct: 227 IAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAH 264
Score = 33.1 bits (76), Expect = 0.15
Identities = 18/82 (21%), Positives = 32/82 (39%)
Query: 162 YPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARK 221
P +A +L + A +L ++ + A A + +DA +
Sbjct: 461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQ 520
Query: 222 DILKVLALEPNNKQAEIELAEL 243
KVL ++P N +A + LA L
Sbjct: 521 RFEKVLTIDPKNLRAILALAGL 542
Score = 32.7 bits (75), Expect = 0.20
Identities = 32/149 (21%), Positives = 51/149 (34%), Gaps = 16/149 (10%)
Query: 102 DKACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGEAIEKYNVAIQT 161
+ +EL + +DE + A +G + G+ A + Y A+
Sbjct: 107 QQVLDELPGKTLLDDEGA------------AELLALRGLAYLGLGQLELAQKSYEQALAI 154
Query: 162 YPHDAVFFANRALCFLKM--KNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDA 219
P +A L L + + A A L D V A + SL + E A
Sbjct: 155 DPRSL--YAKLGLAQLALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELA 212
Query: 220 RKDILKVLALEPNNKQAEIELAELNRKLN 248
K +AL PNN + LA + +
Sbjct: 213 LAAYRKAIALRPNNIAVLLALATILIEAG 241
Score = 30.8 bits (70), Expect = 0.88
Identities = 26/104 (25%), Positives = 47/104 (45%)
Query: 138 QGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDN 197
L++ G++ EA + + ++ P+ + +AL + KNY A +LK
Sbjct: 233 LATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAP 292
Query: 198 TYVKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELA 241
Y+ A A+ L + E A + + ++L PN+ QA LA
Sbjct: 293 EYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLA 336
Score = 30.1 bits (68), Expect = 1.3
Identities = 19/101 (18%), Positives = 40/101 (39%)
Query: 142 LVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVK 201
++ G+ EAI + A+ P D + +L + ++ A + +LD
Sbjct: 339 QLRLGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAA 398
Query: 202 AYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAE 242
A + ++ S +A D+ L+P +A++ L
Sbjct: 399 ARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLIL 439
Score = 30.1 bits (68), Expect = 1.4
Identities = 22/102 (21%), Positives = 40/102 (39%)
Query: 142 LVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVK 201
+ +G+ +A+ N A P + L + A + L L
Sbjct: 577 YLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSAL 636
Query: 202 AYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAEL 243
A A A + ++ A + + L L+P+N +A+I LA+L
Sbjct: 637 ALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQL 678
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 31.9 bits (73), Expect = 0.047
Identities = 13/60 (21%), Positives = 20/60 (33%)
Query: 137 EQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLD 196
++ G + EA+ A+ YP A L+ A A A+L D
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAAD 61
Score = 27.3 bits (61), Expect = 1.9
Identities = 13/62 (20%), Positives = 22/62 (35%)
Query: 172 RALCFLKMKNYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARKDILKVLALEP 231
A L+ +Y A A A+L +A A +A + LA +P
Sbjct: 3 LARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAADP 62
Query: 232 NN 233
++
Sbjct: 63 DD 64
Score = 26.1 bits (58), Expect = 5.1
Identities = 9/44 (20%), Positives = 16/44 (36%)
Query: 205 RRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLN 248
A A +++A + LA P +A + L E +
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQG 45
>gnl|CDD|197478 smart00028, TPR, Tetratricopeptide repeats. Repeats present in 4
or more copies in proteins. Contain a minimum of 34
amino acids each and self-associate via a "knobs and
holes" mechanism.
Length = 34
Score = 30.5 bits (70), Expect = 0.059
Identities = 9/34 (26%), Positives = 14/34 (41%)
Query: 166 AVFFANRALCFLKMKNYVSAEADCTASLKLDNTY 199
A N +LK+ +Y A +L+LD
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 29.3 bits (67), Expect = 0.16
Identities = 10/34 (29%), Positives = 16/34 (47%)
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNN 233
+A A L +++A + K L L+PNN
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 30.5 bits (70), Expect = 0.062
Identities = 11/34 (32%), Positives = 15/34 (44%)
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNN 233
KA A L +++A + K L L PNN
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 29.7 bits (68), Expect = 0.14
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 166 AVFFANRALCFLKMKNYVSAEADCTASLKLDNTY 199
A N +LK+ Y A +L+L+
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
>gnl|CDD|191825 pfam07719, TPR_2, Tetratricopeptide repeat. This Pfam entry
includes outlying Tetratricopeptide-like repeats (TPR)
that are not matched by pfam00515.
Length = 34
Score = 30.6 bits (70), Expect = 0.064
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNN 233
+A A L +E+A + K L L+PNN
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 33.6 bits (77), Expect = 0.076
Identities = 19/118 (16%), Positives = 36/118 (30%), Gaps = 14/118 (11%)
Query: 136 KEQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKL 195
QG ++ G +GEA+ A + P D + ++ + A +L+L
Sbjct: 104 AAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALEL 163
Query: 196 DNTYVKAYQRRAAARRSL-------NHFEDARKDILKVLALEPNNKQAEIELAELNRK 246
+ +L EDA +L + + LA +
Sbjct: 164 A-------PNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGL 214
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 33.2 bits (76), Expect = 0.12
Identities = 16/57 (28%), Positives = 27/57 (47%), Gaps = 2/57 (3%)
Query: 142 LVKEGKWGEAIEKYNVAIQ--TYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLD 196
L +G+ EA++++ A+ Y + N LC LK + AE +L+LD
Sbjct: 113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELD 169
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 29.4 bits (66), Expect = 0.23
Identities = 13/44 (29%), Positives = 23/44 (52%)
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAEL 243
A A A +L ++A + + LAL+P++ +A + LA L
Sbjct: 1 PAALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|218003 pfam04281, Tom22, Mitochondrial import receptor subunit Tom22. The
mitochondrial protein translocase family, which is
responsible for movement of nuclear encoded pre-proteins
into mitochondria, is very complex with at least 19
components. These proteins include several chaperone
proteins, four proteins of the outer membrane
translocase (Tom) import receptor, five proteins of the
Tom channel complex, five proteins of the inner membrane
translocase (Tim) and three "motor" proteins. This
family represents the Tom22 proteins. The N terminal
region of Tom22 has been shown to have chaperone-like
activity, and the C terminal region faces the
intermembrane face.
Length = 136
Score = 30.3 bits (69), Expect = 0.43
Identities = 12/26 (46%), Positives = 15/26 (57%), Gaps = 1/26 (3%)
Query: 106 EELDKQDSDEDEESDVEEEDL-DRIA 130
E+ DSD ++SD E E L DRI
Sbjct: 32 EDDTDTDSDISDDSDFENETLYDRIV 57
>gnl|CDD|152379 pfam11944, DUF3461, Protein of unknown function (DUF3461). This
family of proteins are functionally uncharacterized.
This protein is found in bacteria. Proteins in this
family are about 130 amino acids in length. This protein
has two conserved sequence motifs: KFK and HLE.
Length = 125
Score = 30.4 bits (69), Expect = 0.44
Identities = 19/47 (40%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 93 QLHEIDPTLDKACEELDKQDSDEDEESDVEE---EDLDRIASAVYSK 136
+ EI P L +ELDK E EE D++E EDL + V SK
Sbjct: 68 NVSEISPNLLYVIDELDKITKHEHEEVDIKEKILEDLRHLEKVVNSK 114
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 30.6 bits (67), Expect = 0.71
Identities = 32/146 (21%), Positives = 52/146 (35%), Gaps = 4/146 (2%)
Query: 107 ELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGEAIEKYNVAIQTYP--- 163
+E E + LD + L + G + EA+E Y A++ P
Sbjct: 105 LEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELN 164
Query: 164 HDAVFFANRALCFLKMKNYVSAEADCTASLKLD-NTYVKAYQRRAAARRSLNHFEDARKD 222
A + Y A +LKL+ + +A L +E+A +
Sbjct: 165 ELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEY 224
Query: 223 ILKVLALEPNNKQAEIELAELNRKLN 248
K L L+P+N +A LA L +L
Sbjct: 225 YEKALELDPDNAEALYNLALLLLELG 250
Score = 27.5 bits (59), Expect = 6.9
Identities = 29/132 (21%), Positives = 47/132 (35%), Gaps = 4/132 (3%)
Query: 114 DEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGEAIEKYNVAIQTYP--HDAVFFAN 171
+E + + L G+ EA+E A++ P A
Sbjct: 5 LLALAILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNSDLAGLLLL 64
Query: 172 RALCFLKMKNYVSAEADCTASLK--LDNTYVKAYQRRAAARRSLNHFEDARKDILKVLAL 229
AL LK+ A +L+ L +A +L +E+A + + K LAL
Sbjct: 65 LALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALAL 124
Query: 230 EPNNKQAEIELA 241
+P+ AE LA
Sbjct: 125 DPDPDLAEALLA 136
>gnl|CDD|224643 COG1729, COG1729, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 262
Score = 29.7 bits (67), Expect = 1.3
Identities = 11/51 (21%), Positives = 18/51 (35%), Gaps = 7/51 (13%)
Query: 141 KLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRAL-----CFLKMKNYVSAE 186
L K G + EA + + I+ YP+ + A +Y A
Sbjct: 150 DLYKSGDYAEAEQAFQAFIKKYPNST--YTPNAYYWLGESLYAQGDYEDAA 198
>gnl|CDD|216132 pfam00814, Peptidase_M22, Glycoprotease family. The Peptidase M22
proteins are part of the HSP70-actin superfamily. The
region represented here is an insert into the fold and
is not found in the rest of the family (beyond the
Peptidase M22 family). Included in this family are the
Rhizobial NodU proteins and the HypF regulator. This
region also contains the histidine dyad believed to
coordinate the metal ion and hence provide catalytic
activity. Interestingly the histidines are not well
conserved, and there is a lack of experimental evidence
to support peptidase activity as a general property of
this family. There also appear to be instances of this
domain outside of the HSP70-actin superfamily.
Length = 271
Score = 29.7 bits (67), Expect = 1.3
Identities = 15/50 (30%), Positives = 22/50 (44%), Gaps = 13/50 (26%)
Query: 83 PGGVSWTLAWQLHE--IDPTLDKACEELDKQDSDEDEESDVEEEDLDRIA 130
GGV LA + H + P +++A E + + EDLD IA
Sbjct: 17 YGGVVPELASRHHSERLLPLIEEALAE-----------AGLSLEDLDAIA 55
>gnl|CDD|218059 pfam04391, DUF533, Protein of unknown function (DUF533). Some
family members may be secreted or integral membrane
proteins.
Length = 187
Score = 29.1 bits (66), Expect = 1.6
Identities = 10/39 (25%), Positives = 19/39 (48%), Gaps = 5/39 (12%)
Query: 106 EELDKQDSDEDEESDVEEE-----DLDRIASAVYSKEQG 139
+EL + D +E + +E+E D +A+A + E
Sbjct: 105 QELGELGLDAEERAWLEQELRAPLDPAALAAAATTPELA 143
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 26.4 bits (59), Expect = 1.7
Identities = 10/33 (30%), Positives = 16/33 (48%)
Query: 155 YNVAIQTYPHDAVFFANRALCFLKMKNYVSAEA 187
Y A++ P++A + N AL L + Y A
Sbjct: 2 YEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
>gnl|CDD|221490 pfam12253, CAF1A, Chromatin assembly factor 1 subunit A. The CAF-1
or chromatin assembly factor-1 consists of three
subunits, and this is the first, or A. The A domain is
uniquely required for the progression of S phase in
mouse cells, independent of its ability to promote
histone deposition but dependent on its ability to
interact with HP1 - heterochromatin protein 1-rich
heterochromatin domains next to centromeres that are
crucial for chromosome segregation during mitosis. This
HP1-CAF-1 interaction module functions as a built-in
replication control for heterochromatin, which, like a
control barrier, has an impact on S-phase progression in
addition to DNA-based checkpoints.
Length = 76
Score = 27.6 bits (62), Expect = 1.7
Identities = 7/24 (29%), Positives = 17/24 (70%)
Query: 102 DKACEELDKQDSDEDEESDVEEED 125
++ E+L+ +D +++EE D ++ D
Sbjct: 51 EEEGEDLESEDEEDEEEDDDDDMD 74
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 28.9 bits (65), Expect = 2.5
Identities = 29/120 (24%), Positives = 52/120 (43%), Gaps = 6/120 (5%)
Query: 126 LDRIASAVYSK--EQGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYV 183
LD++ A + + +L++ +GEA A+Q P ++ A C L +
Sbjct: 126 LDKVLPAEEEEALAEAKELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVE 185
Query: 184 SAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARK--DILKVLALEPNNKQAEIELA 241
+A+A A+L L KA A L + D+ + LA +P++ +A + LA
Sbjct: 186 AAQA-ILAALPLQAQ-DKAAHGLQAQIELLEQAAATPEIQDLQRRLAADPDDVEAALALA 243
>gnl|CDD|184234 PRK13677, PRK13677, hypothetical protein; Provisional.
Length = 125
Score = 27.7 bits (62), Expect = 3.3
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 3/47 (6%)
Query: 93 QLHEIDPTLDKACEELDKQDSDEDEESDVEE---EDLDRIASAVYSK 136
++ EI P L +ELD+ + EE D++ +DL + S V +K
Sbjct: 68 EVQEISPNLRYVIDELDQICQRDREEVDLKRKILDDLRHLESVVANK 114
>gnl|CDD|182849 PRK10933, PRK10933, trehalose-6-phosphate hydrolase; Provisional.
Length = 551
Score = 28.6 bits (64), Expect = 3.6
Identities = 15/32 (46%), Positives = 16/32 (50%), Gaps = 2/32 (6%)
Query: 62 RHIALPGYEWKKRAYFHH--TGYPGGVSWTLA 91
R+ AL G E FHH YP G WTLA
Sbjct: 262 RYAALTGSELSMTFNFHHLKVDYPNGEKWTLA 293
>gnl|CDD|227576 COG5251, TAF40, Transcription initiation factor TFIID, subunit
TAF11 [Transcription].
Length = 199
Score = 28.1 bits (62), Expect = 3.8
Identities = 7/42 (16%), Positives = 19/42 (45%)
Query: 99 PTLDKACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGN 140
+ +K+ ++ E+D+E +D+ + + + E N
Sbjct: 38 KYQKTRINQQEKESINKVPENDIEPDDILQQQTQNSNYEDTN 79
>gnl|CDD|219838 pfam08432, DUF1742, Fungal protein of unknown function (DUF1742).
This is a family of fungal proteins of unknown function.
Length = 182
Score = 28.1 bits (63), Expect = 3.8
Identities = 11/46 (23%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 102 DKACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGK 147
DK ++ D + D+ E+ D +E + D++ S + + E K
Sbjct: 96 DKDKDKKDDKKDDKSEKKDEKEAE-DKLEDLTKSYSETLSTLSELK 140
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 28.5 bits (64), Expect = 3.9
Identities = 25/112 (22%), Positives = 37/112 (33%), Gaps = 1/112 (0%)
Query: 142 LVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTYVK 201
L++ K EAIE+ A+ P+ + N A LK A L D
Sbjct: 350 LLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPN 409
Query: 202 AYQRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIELAELNRKLNIPLSP 253
+ A A L + +A + AL +QA I + P
Sbjct: 410 GWDLLAQAYAELGNRAEALLARAEGYALAGRLEQA-IIFLMRASQQVKLGFP 460
Score = 27.8 bits (62), Expect = 7.4
Identities = 23/100 (23%), Positives = 37/100 (37%), Gaps = 3/100 (3%)
Query: 138 QGNKLVKEGKWGEAIEKYNVAIQTYPHDAVFFANRALCFLKMKNYVSAEADCTASLKLDN 197
L+K GK EAI N + P D + A + ++ N A L
Sbjct: 380 LAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAG 439
Query: 198 TYVKAYQ--RRAAARRSLNHFEDARKDILKVLALEPNNKQ 235
+A RA+ + L + AR D ++ L N++
Sbjct: 440 RLEQAIIFLMRASQQVKLGFPDWARADA-RIDQLRQQNEE 478
>gnl|CDD|203124 pfam04928, PAP_central, Poly(A) polymerase central domain. The
central domain of Poly(A) polymerase shares structural
similarity with the allosteric activity domain of
ribonucleotide reductase R1, which comprises a
four-helix bundle and a three-stranded mixed beta-
sheet. Even though the two enzymes bind ATP, the
ATP-recognition motifs are different.
Length = 349
Score = 28.4 bits (64), Expect = 4.3
Identities = 9/20 (45%), Positives = 13/20 (65%), Gaps = 2/20 (10%)
Query: 71 W-KKRA-YFHHTGYPGGVSW 88
W K+R Y + G+ GGV+W
Sbjct: 214 WAKRRGIYSNVLGFLGGVAW 233
>gnl|CDD|234426 TIGR03975, rSAM_ocin_1, bacteriocin maturation radical SAM protein
1. Models TIGR03793 and TIGR03798 describe bacteriocin
precursor families to occur often in large paralogous
families and are subject to various modifications,
including by LanM family lantibiotic synthases and by
cyclodehydratases. This model represents a radical SAM
protein family that regularly occurs in the context of
these bacteriocins, and may occur where other familiar
peptide modification enzymes are absent [Cellular
processes, Toxin production and resistance].
Length = 606
Score = 28.4 bits (64), Expect = 4.6
Identities = 7/30 (23%), Positives = 14/30 (46%)
Query: 39 QGQHKPIYHPLNDCGDHVIVMNSRHIALPG 68
Q ++ P D GD + + ++R A+
Sbjct: 516 QAENPPRLSMYFDEGDRITIEDTRPCAVAR 545
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 26.6 bits (59), Expect = 4.9
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 163 PHDAVFFANRALCFLKMKNYVSAEADCTASLKLDNTY-------VKAYQRRAAARRSLNH 215
P A N AL ++ +Y A +L+L +A A +L
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGD 61
Query: 216 FEDARKDILKVLAL 229
+++A + + K LAL
Sbjct: 62 YDEALEYLEKALAL 75
>gnl|CDD|223066 PHA03379, PHA03379, EBNA-3A; Provisional.
Length = 935
Score = 28.5 bits (63), Expect = 5.2
Identities = 12/36 (33%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 96 EIDPTLDKACEELDKQDSDEDEESDVEEEDLDRIAS 131
E + E ++ ED ESD ++E+L RI S
Sbjct: 338 EGEHDEGATGE---TREESEDTESDGDDEELPRIVS 370
>gnl|CDD|145949 pfam03066, Nucleoplasmin, Nucleoplasmin. Nucleoplasmins are also
known as chromatin decondensation proteins. They bind to
core histones and transfer DNA to them in a reaction
that requires ATP. This is thought to play a role in the
assembly of regular nucleosomal arrays.
Length = 146
Score = 27.3 bits (61), Expect = 5.5
Identities = 8/34 (23%), Positives = 20/34 (58%)
Query: 94 LHEIDPTLDKACEELDKQDSDEDEESDVEEEDLD 127
H + D++ ++ + ++ ++DEE D E+E +
Sbjct: 104 QHLVASEEDESDDDEEDEEEEDDEEDDDEDESEE 137
>gnl|CDD|234164 TIGR03302, OM_YfiO, outer membrane assembly lipoprotein YfiO.
Members of this protein family include YfiO, a
near-essential protein of the outer membrane, part of a
complex involved in protein insertion into the bacterial
outer membrane. Many proteins in this family are
annotated as ComL, based on the involvement of this
protein in natural transformation with exogenous DNA in
Neisseria gonorrhoeae. This protein family shows
sequence similarity to, but is distinct from, the
tol-pal system protein YbgF (TIGR02795) [Protein fate,
Protein and peptide secretion and trafficking].
Length = 235
Score = 27.9 bits (63), Expect = 5.5
Identities = 21/89 (23%), Positives = 35/89 (39%), Gaps = 18/89 (20%)
Query: 104 ACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGEAIEKYNVAIQTYP 163
C K+++D EE EE +Y E+ + + G + EAI+ + YP
Sbjct: 16 GCSSKKKKEADPVEEWPAEE---------LY--EEAKEALDSGDYTEAIKYFEALESRYP 64
Query: 164 HDAVFFANRAL-----CFLKMKNYVSAEA 187
+A +A + K +Y A A
Sbjct: 65 FSP--YAEQAQLDLAYAYYKSGDYAEAIA 91
>gnl|CDD|215971 pfam00524, PPV_E1_N, E1 Protein, N terminal domain.
Length = 131
Score = 27.2 bits (61), Expect = 5.8
Identities = 17/40 (42%), Positives = 18/40 (45%), Gaps = 4/40 (10%)
Query: 105 CEELDKQDS-DEDEESDVEEEDL-DRIASAVYSKEQGNKL 142
C D S DEDE+ DL D I A EQGN L
Sbjct: 24 CS--DDNISEDEDEDLFDTGSDLSDFIDDADVIAEQGNSL 61
>gnl|CDD|219293 pfam07093, SGT1, SGT1 protein. This family consists of several
eukaryotic SGT1 proteins. Human SGT1 or hSGT1 is known
to suppress GCR2 and is highly expressed in the muscle
and heart. The function of this family is unknown
although it has been speculated that SGT1 may be
functionally analogous to the Gcr2p protein of
Saccharomyces cerevisiae which is known to be a
regulatory factor of glycolytic gene expression.
Length = 557
Score = 27.8 bits (62), Expect = 6.8
Identities = 13/57 (22%), Positives = 21/57 (36%), Gaps = 5/57 (8%)
Query: 96 EIDPTLDKACEELDKQ-----DSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGK 147
EI L EEL + D+D ++ ++LD ++ K KE
Sbjct: 352 EILDLLQLDLEELRDEEQDLPPEDDDSWLNISPDELDSELQERQGDKKDLKSNKEDA 408
>gnl|CDD|226096 COG3566, COG3566, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 379
Score = 27.6 bits (61), Expect = 7.5
Identities = 8/51 (15%), Positives = 16/51 (31%)
Query: 94 LHEIDPTLDKACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVK 144
LH LD ++ + E L+ +A + + V+
Sbjct: 228 LHAAQAKLDSGQALTKEELDAKKAELSKALAALEAANAADEDPQDRDAAVE 278
>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
Length = 1157
Score = 27.7 bits (62), Expect = 7.7
Identities = 8/30 (26%), Positives = 12/30 (40%)
Query: 136 KEQGNKLVKEGKWGEAIEKYNVAIQTYPHD 165
+Q L +GKW +A E + P
Sbjct: 465 AQQAEALENQGKWAQAAELQRQRLALDPGS 494
>gnl|CDD|220759 pfam10446, DUF2457, Protein of unknown function (DUF2457). This is
a family of uncharacterized proteins.
Length = 449
Score = 27.7 bits (61), Expect = 8.2
Identities = 14/55 (25%), Positives = 26/55 (47%)
Query: 96 EIDPTLDKACEELDKQDSDEDEESDVEEEDLDRIASAVYSKEQGNKLVKEGKWGE 150
+ + D +E + D D+D+E D +E+D D S + GN+ E + +
Sbjct: 55 DDEEDDDDDDDEDEDDDDDDDDEDDEDEDDDDSTLHDDSSADDGNETDNEAGFAD 109
>gnl|CDD|185100 PRK15178, PRK15178, Vi polysaccharide export inner membrane protein
VexD; Provisional.
Length = 434
Score = 27.4 bits (60), Expect = 8.3
Identities = 22/59 (37%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 166 AVFFANRALCFLKMK-NYVSAEADCTASLKLDNTYVKAYQRRAAARRSLNHFEDARKDI 223
A FFA R L F + N VSA L L+N A + AAR L + +KDI
Sbjct: 217 AEFFAQRILSFAEQHVNTVSARMQKERILWLENDVKSAQENLGAARLELLKIQHIQKDI 275
>gnl|CDD|119375 cd06413, GH25_muramidase_1, Uncharacterized bacterial muramidase
containing a glycosyl hydrolase family 25 (GH25)
catalytic domain. Endo-N-acetylmuramidases are
lysozymes (also referred to as peptidoglycan hydrolases)
that degrade bacterial cell walls by catalyzing the
hydrolysis of 1,4-beta-linkages between N-acetylmuramic
acid and N-acetyl-D-glucosamine residues.
Length = 191
Score = 26.9 bits (60), Expect = 8.7
Identities = 8/33 (24%), Positives = 9/33 (27%), Gaps = 1/33 (3%)
Query: 65 ALPGYEWKKRAYFHHTGYPGGVSWTLAWQLHEI 97
P Y R+ H WT WQ
Sbjct: 143 EFPDYPLWIRSVAGHPRLYEDRPWTF-WQYTNR 174
>gnl|CDD|234937 PRK01294, PRK01294, lipase chaperone; Provisional.
Length = 336
Score = 27.3 bits (61), Expect = 9.2
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 204 QRRAAARRSLNHFEDARKDILKVLALEPNNKQAEIE 239
Q+RAA ++ + + R IL L P ++QA+I
Sbjct: 274 QQRAAWQQRYDDYLAQRAQILNAAGLSPQDRQAQIA 309
>gnl|CDD|227563 COG5238, RNA1, Ran GTPase-activating protein (RanGAP) involved in
mRNA processing and transport [Signal transduction
mechanisms / RNA processing and modification].
Length = 388
Score = 27.2 bits (60), Expect = 9.3
Identities = 11/41 (26%), Positives = 17/41 (41%), Gaps = 1/41 (2%)
Query: 106 EELDKQDSD-EDEESDVEEEDLDRIASAVYSKEQGNKLVKE 145
+E D + DEES+ E E + + V E V +
Sbjct: 338 QEGDVVTEESTDEESEDEVEIDESVIEEVAEMELLEVQVDD 378
>gnl|CDD|203043 pfam04546, Sigma70_ner, Sigma-70, non-essential region. The domain
is found in the primary vegetative sigma factor. The
function of this domain is unclear and can be removed
without loss of function.
Length = 211
Score = 27.2 bits (61), Expect = 9.4
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 96 EIDPTLDKACEELDKQDSDEDEESDVEEEDL 126
I+ LD+ E D D ++++E D EE DL
Sbjct: 43 AIESELDEEDLEDDDDDDEDEDEDDEEEADL 73
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 24.4 bits (54), Expect = 9.7
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 200 VKAYQRRAAARRSLNHFEDARKDILKVLALEPNN 233
+AY L +E+A++ K L L+PNN
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
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
0.317 0.133 0.409
Gapped
Lambda K H
0.267 0.0867 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 14,121,727
Number of extensions: 1342129
Number of successful extensions: 2219
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2148
Number of HSP's successfully gapped: 117
Length of query: 270
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 175
Effective length of database: 6,723,972
Effective search space: 1176695100
Effective search space used: 1176695100
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 58 (25.9 bits)