RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy17412
(240 letters)
>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 = 61.2 bits (149), Expect = 2e-12
Identities = 36/94 (38%), Positives = 49/94 (52%)
Query: 53 GNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDED 112
GN ++ G Y+ AL Y+KA+E D+ Y N A L Y+ L D +KAL LD D
Sbjct: 7 GNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD 66
Query: 113 NMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPT 146
N KA+ A + LG+ EEA E + +E P
Sbjct: 67 NAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 49.3 bits (118), Expect = 5e-08
Identities = 36/111 (32%), Positives = 49/111 (44%), Gaps = 11/111 (9%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLHLQL 174
+A L + LG +EA EY + +E P D+ Y N A L
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDP-----------DNADAYYNLAAAYYKLGK 49
Query: 175 YDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPT 225
Y+ L D +KAL LD DN KA+ A + LG+ EEA E + +E P
Sbjct: 50 YEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 45.4 bits (108), Expect = 1e-06
Identities = 35/110 (31%), Positives = 45/110 (40%), Gaps = 11/110 (10%)
Query: 82 LYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLV 141
N L YD L +KAL LD DN A+ A A + LG+ EEA E + +
Sbjct: 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKAL 61
Query: 142 EKYPTRRKLAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDED 191
E P D+ Y N L L Y+ L +KAL LD +
Sbjct: 62 ELDP-----------DNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 53.9 bits (130), Expect = 4e-10
Identities = 28/69 (40%), Positives = 38/69 (55%), Gaps = 1/69 (1%)
Query: 44 DIADHFKANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHL-QLYDPVLPD 102
D A+ K GN F+ G Y+ A+ Y+KA+E D+ Y N AL L L + Y+ L D
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 103 CDKALRLDE 111
+KAL LD
Sbjct: 61 LEKALELDP 69
Score = 37.7 bits (88), Expect = 4e-04
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 157 DSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQR-EEAKEY 215
D+ N L L YD + +KAL LD DN +A+ A A LG+ EEA E
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 216 IRELVEKYP 224
+ + +E P
Sbjct: 61 LEKALELDP 69
Score = 36.9 bits (86), Expect = 6e-04
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 1/69 (1%)
Query: 78 DSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQR-EEAKEY 136
D+ N L L YD + +KAL LD DN +A+ A A LG+ EEA E
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 137 VRQLVEKYP 145
+ + +E P
Sbjct: 61 LEKALELDP 69
Score = 35.4 bits (82), Expect = 0.002
Identities = 26/80 (32%), Positives = 35/80 (43%), Gaps = 12/80 (15%)
Query: 112 DNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLH 171
DN +A A+ LG +EA E + A+E D+ Y N AL L
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEK-----------ALELDPDNAEAYYNLALAYLK 49
Query: 172 L-QLYDPVLPDCDKALRLDE 190
L + Y+ L D +KAL LD
Sbjct: 50 LGKDYEEALEDLEKALELDP 69
>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 = 51.5 bits (123), Expect = 1e-07
Identities = 37/97 (38%), Positives = 50/97 (51%), Gaps = 4/97 (4%)
Query: 37 EERKARQDIADHFKANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLY 96
EERK A K GNKA+++ + A+ Y KAIE + PV Y+NRA L +
Sbjct: 121 EERKK---YAAKLKEKGNKAYRNKDFNKAIKLYSKAIE-CKPDPVYYSNRAACHNALGDW 176
Query: 97 DPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEA 133
+ V+ D AL LD D KA +A A LG+ +A
Sbjct: 177 EKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADA 213
Score = 41.9 bits (98), Expect = 2e-04
Identities = 24/125 (19%), Positives = 50/125 (40%), Gaps = 11/125 (8%)
Query: 100 LPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSP 159
L D K++ LD ++++ +A LG ++A+E + A++ + P
Sbjct: 351 LADLSKSIELDPRVTQSYIKRASMNLELGDPDKAEEDFDK-----------ALKLNSEDP 399
Query: 160 VLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIREL 219
+Y +RA + D K++ LD D + +H+ + G + R
Sbjct: 400 DIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRC 459
Query: 220 VEKYP 224
+ +P
Sbjct: 460 KKNFP 464
Score = 35.0 bits (80), Expect = 0.034
Identities = 40/198 (20%), Positives = 74/198 (37%), Gaps = 30/198 (15%)
Query: 69 YDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLG 128
+DKA++ + P +Y +RA + D K++ LD D + +H+ + G
Sbjct: 388 FDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEG 447
Query: 129 QREEAKEYVRQLVEKYPT-----------------------RRKLAIEQVRDSPVLYTN- 164
+ R+ + +P + AIE +++ +Y N
Sbjct: 448 SIASSMATFRRCKKNFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNV 507
Query: 165 -----RALTLLH-LQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRE 218
+AL L Q + C+KAL +D + A A+ + G +EA +
Sbjct: 508 LPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFER 567
Query: 219 LVEKYPTRRKLVENYTQA 236
E T +LV+ + A
Sbjct: 568 AAELARTEGELVQAISYA 585
Score = 34.6 bits (79), Expect = 0.036
Identities = 31/112 (27%), Positives = 47/112 (41%), Gaps = 8/112 (7%)
Query: 101 PDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPV 160
D L E+ K + A + G + + + ++ Y AIE + PV
Sbjct: 110 IDESSVANLSEEERKKY---AAKLKEKGNKAYRNKDFNKAIKLY----SKAIE-CKPDPV 161
Query: 161 LYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEA 212
Y+NRA L ++ V+ D AL LD D KA +A A LG+ +A
Sbjct: 162 YYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADA 213
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 41.7 bits (98), Expect = 2e-04
Identities = 24/82 (29%), Positives = 40/82 (48%)
Query: 53 GNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDED 112
+AF + A+ Y +AI+ ++ LY +RA + L + + D +KA+ LD
Sbjct: 9 AKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPS 68
Query: 113 NMKAHLYKARAMHSLGQREEAK 134
KA+L K A L + + AK
Sbjct: 69 LAKAYLRKGTACMKLEEYQTAK 90
Score = 32.1 bits (73), Expect = 0.25
Identities = 20/63 (31%), Positives = 32/63 (50%)
Query: 151 AIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQRE 210
AI+ ++ LY +RA + L + + D +KA+ LD KA+L K A L + +
Sbjct: 28 AIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEEYQ 87
Query: 211 EAK 213
AK
Sbjct: 88 TAK 90
>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 = 40.8 bits (96), Expect = 4e-04
Identities = 38/172 (22%), Positives = 62/172 (36%), Gaps = 11/172 (6%)
Query: 53 GNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDED 112
G GQ E A Y++A+ S A L +D D+ L D
Sbjct: 132 GLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVLTADPG 191
Query: 113 NMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLHL 172
N+ A L K + SLG E A R+ AI ++ + A L+
Sbjct: 192 NVDALLLKGDLLLSLGNIELALAAYRK-----------AIALRPNNIAVLLALATILIEA 240
Query: 173 QLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
++ D L+ ++ AH KA E+A+E +++ ++ P
Sbjct: 241 GEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAP 292
Score = 40.8 bits (96), Expect = 4e-04
Identities = 48/217 (22%), Positives = 72/217 (33%), Gaps = 33/217 (15%)
Query: 32 AMRRFEERKARQDI-------ADHFKA---NGNKAFQSGQYEAALVQYDKAIEQVRDSPV 81
A+ +AR I + A G+ G E AL Y KAI ++
Sbjct: 169 ALAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNIA 228
Query: 82 LYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLV 141
+ A L+ ++ D L+ ++ AH KA E+A+E ++ +
Sbjct: 229 VLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDAL 288
Query: 142 EK---YPTRRKLA---------IEQVR-----------DSPVLYTNRALTLLHLQLYDPV 178
+ Y LA +EQ +S A L L D
Sbjct: 289 KSAPEYLPALLLAGASEYQLGNLEQAYQYLNQILKYAPNSHQARRLLASIQLRLGRVDEA 348
Query: 179 LPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEY 215
+ AL LD D+ A A LG E+A EY
Sbjct: 349 IATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEY 385
Score = 36.2 bits (84), Expect = 0.012
Identities = 37/175 (21%), Positives = 63/175 (36%), Gaps = 15/175 (8%)
Query: 53 GNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDP--VLPDCDKALRLD 110
G G +E A KA E ++ T L + L DP + D + A +LD
Sbjct: 370 GEAYLALGDFEKAAEYLAKATELDPENAAART--QLGISKLSQGDPSEAIADLETAAQLD 427
Query: 111 EDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLL 170
+ +A L + GQ ++A ++L +K P D+ L+ L
Sbjct: 428 PELGRADLLLILSYLRSGQFDKALAAAKKLEKKQP-----------DNASLHNLLGAIYL 476
Query: 171 HLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPT 225
+KAL ++ D A AR G ++A + +++ P
Sbjct: 477 GKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPK 531
Score = 35.8 bits (83), Expect = 0.019
Identities = 35/182 (19%), Positives = 71/182 (39%), Gaps = 31/182 (17%)
Query: 68 QYDKAIEQVRDSP--------VLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLY 119
++ + ++++ L R L L L + ++AL +D ++ A L
Sbjct: 105 KFQQVLDELPGKTLLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLG 164
Query: 120 KARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLL-HLQL---- 174
A+ + + +EA+ + +++ P AL L L L
Sbjct: 165 LAQLALAENRFDEARALIDEVLTADPGNVD----------------ALLLKGDLLLSLGN 208
Query: 175 YDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPTRRKLVENYT 234
+ L KA+ L +N+ L A + G+ EEA+++ L++K P + +Y
Sbjct: 209 IELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEAEKHADALLKKAP--NSPLAHYL 266
Query: 235 QA 236
+A
Sbjct: 267 KA 268
Score = 35.1 bits (81), Expect = 0.035
Identities = 37/178 (20%), Positives = 65/178 (36%), Gaps = 10/178 (5%)
Query: 51 ANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLD 110
Q +Y+AA++Q A+++ + L L Y + KAL L
Sbjct: 27 EAAKSYLQKNKYKAAIIQLKNALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKALSLG 86
Query: 111 EDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLL 170
+ ARA G+ ++ + +L K + A E L R L L
Sbjct: 87 YPKNQVLPLLARAYLLQGKFQQV---LDELPGKTLLDDEGAAE-------LLALRGLAYL 136
Query: 171 HLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPTRRK 228
L + ++AL +D ++ A L A+ + +EA+ I E++ P
Sbjct: 137 GLGQLELAQKSYEQALAIDPRSLYAKLGLAQLALAENRFDEARALIDEVLTADPGNVD 194
Score = 30.1 bits (68), Expect = 1.1
Identities = 38/168 (22%), Positives = 59/168 (35%), Gaps = 16/168 (9%)
Query: 60 GQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDN-MKAHL 118
G Y AA + KA+ + A L + VL + LD++ +
Sbjct: 70 GDYAAAEKELRKALSLGYPKNQVLPLLARAYLLQGKFQQVLDELPGKTLLDDEGAAELLA 129
Query: 119 YKARAMHSLGQREEAKEYVRQLVEKYPTR--RKLAIEQVRDSPVLYTNRALTLLHLQLYD 176
+ A LGQ E A++ Q + P KL + Q+ L +D
Sbjct: 130 LRGLAYLGLGQLELAQKSYEQALAIDPRSLYAKLGLAQL-------------ALAENRFD 176
Query: 177 PVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
D+ L D N+ A L K + +LG E A R+ + P
Sbjct: 177 EARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRP 224
Score = 28.9 bits (65), Expect = 2.5
Identities = 27/123 (21%), Positives = 51/123 (41%), Gaps = 4/123 (3%)
Query: 102 DCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVL 161
KAL + + A A LG+ + A + + V + +KL + DS +
Sbjct: 582 QLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSF---KKL-LALQPDSALA 637
Query: 162 YTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVE 221
A ++ Y + +AL L DN +A + A+ + + E AK+ + L +
Sbjct: 638 LLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSLQK 697
Query: 222 KYP 224
++P
Sbjct: 698 QHP 700
>gnl|CDD|193441 pfam12968, DUF3856, Domain of Unknown Function (DUF3856). TPR-like
protein. The 2hr2 structure belongs to the SCOP all
alpha class, TPR-like superfamily, CT2138-like family. A
DALI search gives hits with the putative peptidyl-prolyl
isomerase 2fbn (Z=16), the SGTA protein (Z=16), the PLCR
protein 2qfc (Z=16), a putative FK506-binding protein
(PDB:1qz2-A; DALI Z-score 15.3; RMSD 2.9; 16% sequence
identity within 132 superimposed residues), and with the
tetratricopeptide repeats of the protein phosphatase 5
(PDB:2bug; DALI Z-score 15.1; RMSD 2.5; 19% sequence
identity within 117 superimposed residues).
Length = 142
Score = 35.5 bits (82), Expect = 0.007
Identities = 35/128 (27%), Positives = 51/128 (39%), Gaps = 25/128 (19%)
Query: 40 KARQDIADHFKA--NGNKAFQSGQYEAALVQYDKAIEQVRDSP------------VLYTN 85
K +++A + A + + Q G YE A KA+E R P +
Sbjct: 1 KPLKEVAMAYMALSDAERQLQDGAYEEAAASCRKAMEVSRTIPPEEAFDHAGFDAFCHAG 60
Query: 86 RALTLLHLQLYDPVLPDCDKALR-------LDEDNMK----AHLYKARAMHSLGQREEAK 134
+ L L YD L D+ALR L +D K A +A A+ LG++EEA
Sbjct: 61 LSGALAGLGRYDEALHSADRALRYFNRRGELHQDEGKLWIAAVFSRAVALEGLGRKEEAL 120
Query: 135 EYVRQLVE 142
+ R E
Sbjct: 121 KEFRMAGE 128
Score = 27.0 bits (60), Expect = 6.6
Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 11/58 (18%)
Query: 175 YDPVLPDCDKALR-------LDEDNMK----AHLYKARAMHNLGQREEAKEYIRELVE 221
YD L D+ALR L +D K A +A A+ LG++EEA + R E
Sbjct: 71 YDEALHSADRALRYFNRRGELHQDEGKLWIAAVFSRAVALEGLGRKEEALKEFRMAGE 128
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 36.4 bits (82), Expect = 0.008
Identities = 56/216 (25%), Positives = 88/216 (40%), Gaps = 14/216 (6%)
Query: 29 EIDAMRRFEERKARQDIADHFKANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRAL 88
++ + + E + ++A+ G G+YE AL +KA+ D + AL
Sbjct: 78 ALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLAL 137
Query: 89 TLL-HLQLYDPVLPDCDKALRLDEDNMK---AHLYKARAMHSLGQREEAKEYVRQLVEKY 144
L L Y+ L +KAL LD + + A L + +LG+ EEA E + + ++
Sbjct: 138 GALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLN 197
Query: 145 PTRRKLAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMH 204
P D N L L L Y+ L +KAL LD DN +A A +
Sbjct: 198 P----------DDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLL 247
Query: 205 NLGQREEAKEYIRELVEKYPTRRKLVENYTQAFEQE 240
LG+ EEA E + + +E P L +
Sbjct: 248 ELGRYEEALEALEKALELDPDLYNLGLALLLLLAEA 283
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 32.8 bits (76), Expect = 0.009
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 194 KAHLYKARAMHNLGQREEAKEYIRELVEKYPT 225
A A A LG +EAKE + L+++YP
Sbjct: 1 DALYKLALAYLKLGDTDEAKEALERLLKRYPD 32
Score = 31.3 bits (72), Expect = 0.033
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEKYPT 146
A A A LG +EAKE + +L+++YP
Sbjct: 1 DALYKLALAYLKLGDTDEAKEALERLLKRYPD 32
>gnl|CDD|225660 COG3118, COG3118, Thioredoxin domain-containing protein
[Posttranslational modification, protein turnover,
chaperones].
Length = 304
Score = 35.8 bits (83), Expect = 0.012
Identities = 37/169 (21%), Positives = 66/169 (39%), Gaps = 17/169 (10%)
Query: 56 AFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMK 115
FQ Q E+ L Q+ + + L A L+ + + P +AL+ +N +
Sbjct: 112 GFQGAQPESQLRQFLDKVLPAEEEEALAE--AKELIEAEDFGEAAPLLKQALQAAPENSE 169
Query: 116 AHLYKARAMHSLGQREEAKEYVRQLVEKYP-TRRKLAIEQVRDSPVLYTNRALTLLHLQL 174
A L A + + G E A+ + L + Q+ L Q
Sbjct: 170 AKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIE-------------LLEQA 216
Query: 175 YD-PVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEK 222
P + D + L D D+++A L A +H +G+ E A E++ L+ +
Sbjct: 217 AATPEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRR 265
>gnl|CDD|227044 COG4700, COG4700, Uncharacterized protein conserved in bacteria
containing a divergent form of TPR repeats [Function
unknown].
Length = 251
Score = 34.1 bits (78), Expect = 0.037
Identities = 18/117 (15%), Positives = 41/117 (35%), Gaps = 8/117 (6%)
Query: 37 EERKARQDIAD-----HFKANGNKAFQSGQYEAALVQYDKAIEQV-RDSPVLYTNRALTL 90
R+A +++A + N + G+Y A+ Y +A+ + + A
Sbjct: 75 HLREATEELAIAPTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQ 134
Query: 91 LHLQLYDPVLPDCDKALRLDEDNMKAH--LYKARAMHSLGQREEAKEYVRQLVEKYP 145
+Q + + + + L AR + + G+ +A+ + YP
Sbjct: 135 FAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLFARTLAAQGKYADAESAFEVAISYYP 191
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 29.7 bits (68), Expect = 0.12
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 80 PVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDN 113
N L L YD L +KAL L+ +N
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 29.7 bits (68), Expect = 0.12
Identities = 11/34 (32%), Positives = 14/34 (41%)
Query: 159 PVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDN 192
N L L YD L +KAL L+ +N
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 25.5 bits (57), Expect = 3.3
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 53 GNKAFQSGQYEAALVQYDKAIE 74
GN + G+Y+ AL Y+KA+E
Sbjct: 8 GNAYLKLGKYDEALEYYEKALE 29
>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 = 32.3 bits (74), Expect = 0.14
Identities = 38/172 (22%), Positives = 63/172 (36%), Gaps = 17/172 (9%)
Query: 57 FQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPD--CDKALRLDEDNM 114
+ G E A DKA+E D AL L + QL + + +AL L+ +N
Sbjct: 42 LEQGDLEVAKENLDKALEH--DPDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNG 99
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVE--KYPTRRKLAIEQVRDSPVLYTNRALTLLHL 172
+ G+ E+A + Q +E YP N L L
Sbjct: 100 DVLNNYGTFLCQQGKYEQAMQQFEQAIEDPLYPQP-----------ARSLENAGLCALKA 148
Query: 173 QLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
+D +AL++D ++ L A + GQ ++A+ Y+ + Y
Sbjct: 149 GDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDARAYLERYQQTYN 200
Score = 29.2 bits (66), Expect = 1.8
Identities = 17/57 (29%), Positives = 26/57 (45%)
Query: 83 YTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQ 139
AL L + + DKAL D D+ A+L A LG+ E+A++ R+
Sbjct: 34 RVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRR 90
>gnl|CDD|236206 PRK08260, PRK08260, enoyl-CoA hydratase; Provisional.
Length = 296
Score = 31.9 bits (73), Expect = 0.23
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 114 MKAHLYKARAMHSLGQREEAKEYVRQLVEKYP 145
M+AH +RA++S G+ + KE V +EK P
Sbjct: 241 MEAHRVDSRAIYSRGRSGDGKEGVSSFLEKRP 272
Score = 29.2 bits (66), Expect = 1.6
Identities = 11/32 (34%), Positives = 20/32 (62%)
Query: 193 MKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
M+AH +RA+++ G+ + KE + +EK P
Sbjct: 241 MEAHRVDSRAIYSRGRSGDGKEGVSSFLEKRP 272
>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 = 31.9 bits (73), Expect = 0.29
Identities = 31/120 (25%), Positives = 49/120 (40%), Gaps = 15/120 (12%)
Query: 105 KALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTN 164
K L+ D +N L A + G+ EA +Y+++ V ++PT Y
Sbjct: 111 KLLQRDPNNPDGLLGLALTLADAGKDAEALKYLKEYVARFPT-----------DAARYEA 159
Query: 165 RALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
A L + + L +AL L+ DN +A L R + LG A L ++YP
Sbjct: 160 LAYVLRAAEDHLDALQAWQQALTLEPDNPEAALELYRILTRLGAPPAAA----RLAKQYP 215
Score = 30.0 bits (68), Expect = 1.2
Identities = 14/42 (33%), Positives = 24/42 (57%)
Query: 184 KALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPT 225
K L+ D +N L A + + G+ EA +Y++E V ++PT
Sbjct: 111 KLLQRDPNNPDGLLGLALTLADAGKDAEALKYLKEYVARFPT 152
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 28.3 bits (64), Expect = 0.33
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 182 CDKALRLDEDNMKAHLYKARAMHNLGQREEAKE 214
+KAL LD +N +A+ A + NLGQ +EA +
Sbjct: 2 YEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
Score = 27.2 bits (61), Expect = 0.94
Identities = 13/33 (39%), Positives = 21/33 (63%)
Query: 103 CDKALRLDEDNMKAHLYKARAMHSLGQREEAKE 135
+KAL LD +N +A+ A + +LGQ +EA +
Sbjct: 2 YEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 31.2 bits (71), Expect = 0.33
Identities = 37/172 (21%), Positives = 58/172 (33%), Gaps = 17/172 (9%)
Query: 57 FQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPD--CDKALRLDEDNM 114
Q G Y A +KA+E + + RA + +L + L D KAL L +N
Sbjct: 46 LQQGDYAQAKKNLEKALEHDPSYYLAHLVRA--HYYQKLGENDLADESYRKALSLAPNNG 103
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEK--YPTRRKLAIEQVRDSPVLYTNRALTLLHL 172
+ + G+ EEA + + + Y N L L
Sbjct: 104 DVLNNYGAFLCAQGRPEEAMQQFERALADPAYGEP-----------SDTLENLGLCALKA 152
Query: 173 QLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
+D +AL LD A L AR + G A+ Y+ ++
Sbjct: 153 GQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARLYLERYQQRGG 204
Score = 27.4 bits (61), Expect = 6.1
Identities = 16/51 (31%), Positives = 24/51 (47%)
Query: 183 DKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPTRRKLVENY 233
+KAL D AHL +A LG+ + A E R+ + P ++ NY
Sbjct: 59 EKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNY 109
>gnl|CDD|188247 TIGR02795, tol_pal_ybgF, tol-pal system protein YbgF. Members of
this protein family are the product of one of seven
genes regularly clustered in operons to encode the
proteins of the tol-pal system, which is critical for
maintaining the integrity of the bacterial outer
membrane. The gene for this periplasmic protein has been
designated orf2 and ybgF. All members of the seed
alignment were from unique tol-pal gene regions from
completed bacterial genomes. The architecture of this
protein is a signal sequence, a low-complexity region
usually rich in Asn and Gln, a well-conserved region
with tandem repeats that resemble the tetratricopeptide
(TPR) repeat, involved in protein-protein interaction.
Length = 117
Score = 30.3 bits (69), Expect = 0.36
Identities = 9/29 (31%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 197 LYK-ARAMHNLGQREEAKEYIRELVEKYP 224
L K ++ LG +E+AK +++++++YP
Sbjct: 77 LLKLGMSLQELGDKEKAKATLQQVIKRYP 105
Score = 29.2 bits (66), Expect = 0.92
Identities = 10/29 (34%), Positives = 20/29 (68%), Gaps = 1/29 (3%)
Query: 118 LYK-ARAMHSLGQREEAKEYVRQLVEKYP 145
L K ++ LG +E+AK ++Q++++YP
Sbjct: 77 LLKLGMSLQELGDKEKAKATLQQVIKRYP 105
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 29.3 bits (66), Expect = 0.48
Identities = 24/76 (31%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 156 RDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNL-------GQ 208
D N AL L L YD L +KAL L + + H ARA++NL G
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGD 61
Query: 209 REEAKEYIRELVEKYP 224
+EA EY+ + +
Sbjct: 62 YDEALEYLEKALALRE 77
Score = 27.3 bits (61), Expect = 2.1
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 7/76 (9%)
Query: 77 RDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSL-------GQ 129
D N AL L L YD L +KAL L + + H ARA+++L G
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGD 61
Query: 130 REEAKEYVRQLVEKYP 145
+EA EY+ + +
Sbjct: 62 YDEALEYLEKALALRE 77
>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 = 27.9 bits (63), Expect = 0.56
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 194 KAHLYKARAMHNLGQREEAKEYIRELVEKYPT 225
+A A + LG EEA E + +E P
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELDPN 33
Score = 25.9 bits (58), Expect = 2.3
Identities = 10/32 (31%), Positives = 14/32 (43%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEKYPT 146
+A A + LG EEA E + +E P
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELDPN 33
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 30.8 bits (70), Expect = 0.66
Identities = 33/154 (21%), Positives = 49/154 (31%), Gaps = 18/154 (11%)
Query: 86 RALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYP 145
RAL YD L + DN + + +EA E +++ + P
Sbjct: 312 RALQTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDP 371
Query: 146 TRRKLAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHN 205
+SP+L N A LL + ++ L D ++ A+A
Sbjct: 372 -----------NSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAE 420
Query: 206 LGQREEAKEYIRELVEKYPTRRKLVENYTQAFEQ 239
LG R EA E Y L QA
Sbjct: 421 LGNRAEALL---ARAEGY----ALAGRLEQAIIF 447
Score = 28.9 bits (65), Expect = 2.6
Identities = 23/99 (23%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 56 AFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMK 115
++ + + A+ + KA+ +SP+L N A LL + ++ L D ++
Sbjct: 350 LLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEAIRILNRYLFNDPEDPN 409
Query: 116 AHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQ 154
A+A LG R EA R R + AI
Sbjct: 410 GWDLLAQAYAELGNRAEALL-ARAEGYALAGRLEQAIIF 447
>gnl|CDD|224643 COG1729, COG1729, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 262
Score = 30.5 bits (69), Expect = 0.69
Identities = 13/60 (21%), Positives = 25/60 (41%), Gaps = 9/60 (15%)
Query: 100 LPDCDKALRLDEDNMKAHLYK-ARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDS 158
P KA D + K ++ LG +EA ++Q++++YP + +V
Sbjct: 208 YPKSPKA----PDAL----LKLGVSLGRLGNTDEACATLQQVIKRYPGTDAAKLAKVALK 259
Score = 29.0 bits (65), Expect = 2.3
Identities = 11/47 (23%), Positives = 22/47 (46%), Gaps = 9/47 (19%)
Query: 179 LPDCDKALRLDEDNMKAHLYK-ARAMHNLGQREEAKEYIRELVEKYP 224
P KA D + K ++ LG +EA +++++++YP
Sbjct: 208 YPKSPKA----PDAL----LKLGVSLGRLGNTDEACATLQQVIKRYP 246
>gnl|CDD|185102 PRK15180, PRK15180, Vi polysaccharide biosynthesis protein TviD;
Provisional.
Length = 831
Score = 30.5 bits (68), Expect = 0.88
Identities = 25/100 (25%), Positives = 42/100 (42%), Gaps = 6/100 (6%)
Query: 37 EERKARQDIADHFKANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLY 96
E R+ +QD + K G AA Q A+ + PVL R++ HL Y
Sbjct: 280 EGRQEKQDQIREITLSITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVIFSHLGYY 339
Query: 97 DPV---LPDCDKALRLDEDNMKAHLYKARAMHSLGQREEA 133
+ + D +K + + ++ L R++H L + EA
Sbjct: 340 EQAYQDISDVEKIIGTTDSTLRCRL---RSLHGLARWREA 376
>gnl|CDD|236769 PRK10820, PRK10820, DNA-binding transcriptional regulator TyrR;
Provisional.
Length = 520
Score = 30.4 bits (69), Expect = 0.88
Identities = 29/98 (29%), Positives = 47/98 (47%), Gaps = 16/98 (16%)
Query: 59 SGQYEAALVQYD--KAIEQVRDSPVLYTNRALTLLH---LQLYDPVLPDCDKALRLDEDN 113
+ L +Y + Q++++ +Y RALT L L+ D +LPD D A+ + ED
Sbjct: 407 AADLNTVLTRYGWPGNVRQLKNA--IY--RALTQLEGYELRPQDILLPDYDAAVAVGEDA 462
Query: 114 MKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLA 151
M+ L + R E + + +L YP+ RKLA
Sbjct: 463 MEGSL------DEITSRFE-RSVLTRLYRNYPSTRKLA 493
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 27.1 bits (61), Expect = 0.97
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 194 KAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
+A+ + LG EEAKEY + +E P
Sbjct: 2 RAYYLLGQIYLQLGDYEEAKEYYEKALELDP 32
Score = 25.5 bits (57), Expect = 3.7
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEKYP 145
+A+ + LG EEAKEY + +E P
Sbjct: 2 RAYYLLGQIYLQLGDYEEAKEYYEKALELDP 32
>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 = 26.6 bits (60), Expect = 1.3
Identities = 12/34 (35%), Positives = 14/34 (41%)
Query: 80 PVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDN 113
N L L YD L +KAL LD +N
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 26.6 bits (60), Expect = 1.3
Identities = 12/34 (35%), Positives = 14/34 (41%)
Query: 159 PVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDN 192
N L L YD L +KAL LD +N
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 25.1 bits (56), Expect = 4.1
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 53 GNKAFQSGQYEAALVQYDKAIEQVRD 78
GN + G Y+ AL Y+KA+E +
Sbjct: 8 GNAYLKLGDYDEALEYYEKALELDPN 33
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 27.3 bits (61), Expect = 1.5
Identities = 13/63 (20%), Positives = 21/63 (33%)
Query: 51 ANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLD 110
A A ++G Y+ AL + A+ + + LL AL D
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAAD 61
Query: 111 EDN 113
D+
Sbjct: 62 PDD 64
Score = 26.1 bits (58), Expect = 4.2
Identities = 11/46 (23%), Positives = 17/46 (36%)
Query: 179 LPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYP 224
L + AL +A L A+ G+ EA +R + P
Sbjct: 17 LAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAADP 62
>gnl|CDD|100115 cd05804, StaR_like, StaR_like; a well-conserved protein found in
bacteria, plants, and animals. A family member from
Streptomyces toyocaensis, StaR is part of a gene cluster
involved in the biosynthesis of glycopeptide antibiotics
(GPAs), specifically A47934. It has been speculated that
StaR could be a flavoprotein hydroxylating a tyrosine
sidechain. Some family members have been annotated as
proteins containing tetratricopeptide (TPR) repeats,
which may at least indicate mostly alpha-helical
secondary structure.
Length = 355
Score = 29.2 bits (66), Expect = 1.8
Identities = 16/83 (19%), Positives = 26/83 (31%)
Query: 57 FQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKA 116
SG + + D L A L YD +AL L+ D+ A
Sbjct: 91 DFSGMRDHVARVLPLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWA 150
Query: 117 HLYKARAMHSLGQREEAKEYVRQ 139
A + G+ +E ++
Sbjct: 151 VHAVAHVLEMQGRFKEGIAFMES 173
Score = 27.6 bits (62), Expect = 5.3
Identities = 24/130 (18%), Positives = 41/130 (31%), Gaps = 27/130 (20%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQLVEKYPT--------------------------RR 148
+AH+ +A + G +A + QL++ YP
Sbjct: 45 RAHV-EALSAWIAGDLPKALALLEQLLDDYPRDLLALKLHLGAFGLGDFSGMRDHVARVL 103
Query: 149 KLAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQ 208
L + D L A L YD +AL L+ D+ A A + G+
Sbjct: 104 PLWAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGR 163
Query: 209 REEAKEYIRE 218
+E ++
Sbjct: 164 FKEGIAFMES 173
>gnl|CDD|185096 PRK15174, PRK15174, Vi polysaccharide export protein VexE;
Provisional.
Length = 656
Score = 28.9 bits (64), Expect = 2.9
Identities = 12/59 (20%), Positives = 21/59 (35%)
Query: 89 TLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYPTR 147
L+ + +P ++L D ARA+ +GQ A + QL +
Sbjct: 293 ALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVT 351
Score = 28.9 bits (64), Expect = 3.1
Identities = 11/59 (18%), Positives = 21/59 (35%)
Query: 168 TLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPTR 226
L+ + +P ++L D ARA+ +GQ A + +L +
Sbjct: 293 ALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVT 351
>gnl|CDD|226428 COG3914, Spy, Predicted O-linked N-acetylglucosamine transferase,
SPINDLY family [Posttranslational modification, protein
turnover, chaperones].
Length = 620
Score = 28.6 bits (64), Expect = 3.3
Identities = 18/87 (20%), Positives = 30/87 (34%), Gaps = 2/87 (2%)
Query: 60 GQYEAALVQYDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLP--DCDKALRLDEDNMKAH 117
G A+ I +P L L++L L D L L ++ +N A
Sbjct: 45 GLQALAIYALLLGIAINDVNPELLLAAFLSILLAPLADSTLAFLAKRIPLSVNPENCPAV 104
Query: 118 LYKARAMHSLGQREEAKEYVRQLVEKY 144
A A+ G + A + ++ E
Sbjct: 105 QNLAAALELDGLQFLALADISEIAEWL 131
>gnl|CDD|216094 pfam00747, Viral_DNA_bp, ssDNA binding protein. This protein is
found in herpesviruses and is needed for replication.
Length = 1111
Score = 28.5 bits (64), Expect = 4.3
Identities = 17/64 (26%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 182 CDKALRLD----EDNMKAHLYKA--RAMHNLGQR--EEAKEYIRELVEKYPTRRKLVENY 233
CDK +D ED H + + + +L Q +E +++RELVE R+ ++
Sbjct: 565 CDKNSLIDCSTGEDTSNIHGKRDFVKVVSDLNQVVDDEVVQFMRELVETRIFFREGIKEA 624
Query: 234 TQAF 237
T +
Sbjct: 625 THSM 628
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 27.8 bits (62), Expect = 4.8
Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 11/101 (10%)
Query: 121 ARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLHLQLYDPVLP 180
A A++ G + + +++ YP R+L Q + + + N + L+
Sbjct: 73 ATALYLRGDADSSLAVLQKSAIAYPKDRELLAAQGK-NQIRNGNFGEAVSVLR------- 124
Query: 181 DCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVE 221
KA RL + +A A+ LG+ +EA+ R+ +E
Sbjct: 125 ---KAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALE 162
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 25.2 bits (55), Expect = 4.9
Identities = 11/43 (25%), Positives = 18/43 (41%)
Query: 194 KAHLYKARAMHNLGQREEAKEYIRELVEKYPTRRKLVENYTQA 236
A L ARA+ LG +EA +R + P + + +
Sbjct: 2 AALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|198111 smart01043, BTAD, Bacterial transcriptional activator domain.
Found in the DNRI/REDD/AFSR family of regulators. This
region of AFSR along with the C terminal region is
capable of independently directing actinorhodin
production. This family contains TPR repeats.
Length = 145
Score = 27.3 bits (61), Expect = 5.4
Identities = 17/57 (29%), Positives = 25/57 (43%)
Query: 165 RALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHNLGQREEAKEYIRELVE 221
A LL L ++ L ++ L LD + H RA++ G+R EA R L
Sbjct: 67 LAEALLALGRHEEALALLERLLALDPLRERLHRLLMRALYRAGRRAEALRAYRRLRR 123
Score = 26.9 bits (60), Expect = 6.1
Identities = 17/57 (29%), Positives = 26/57 (45%)
Query: 86 RALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVE 142
A LL L ++ L ++ L LD + H RA++ G+R EA R+L
Sbjct: 67 LAEALLALGRHEEALALLERLLALDPLRERLHRLLMRALYRAGRRAEALRAYRRLRR 123
>gnl|CDD|236148 PRK08074, PRK08074, bifunctional ATP-dependent DNA helicase/DNA
polymerase III subunit epsilon; Validated.
Length = 928
Score = 27.6 bits (62), Expect = 6.5
Identities = 18/62 (29%), Positives = 33/62 (53%), Gaps = 5/62 (8%)
Query: 69 YDKAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALRLDEDNMKAHLYKARAMHSLG 128
Y +A + + + ++ TN AL L L +P+LP + + +DE AH ++ A LG
Sbjct: 422 YQRAKNRAKFADLVITNHALLLTDLTSEEPLLPSYEHII-IDE----AHHFEEAASRHLG 476
Query: 129 QR 130
++
Sbjct: 477 EQ 478
>gnl|CDD|226039 COG3508, HmgA, Homogentisate 1,2-dioxygenase [Secondary metabolites
biosynthesis, transport, and catabolism].
Length = 427
Score = 27.5 bits (61), Expect = 6.6
Identities = 19/94 (20%), Positives = 34/94 (36%), Gaps = 6/94 (6%)
Query: 32 AMRRFEERKARQDIADHFKANGNKAFQSGQYEAALVQYDKAIEQVRDSPVLYTNRALTLL 91
A R R I + + G++++AL+ Q+R SP+ L
Sbjct: 48 APRGENRRSWLYRIRPSANHPTFRPMKLGEWKSALIGPWATPNQLRWSPLPLPKAPTDFL 107
Query: 92 HLQLYDPVLPDCDKALRLDEDNMKAHLYKA-RAM 124
D +L + +D + H+YK +M
Sbjct: 108 -----DGILLIANNGDADTQDGVAIHVYKVNESM 136
>gnl|CDD|223094 COG0015, PurB, Adenylosuccinate lyase [Nucleotide transport and
metabolism].
Length = 438
Score = 27.6 bits (62), Expect = 6.7
Identities = 18/80 (22%), Positives = 33/80 (41%), Gaps = 12/80 (15%)
Query: 105 KALRLDEDNMKAHLYKA-------RAMHSLGQ----REEAKEYVRQL-VEKYPTRRKLAI 152
+ L ++ + M+ +L R M +L + REEA E VR+ ++ + ++
Sbjct: 339 EGLEVNPERMRRNLDLTLGLIASERVMLALRKKGMGREEAHELVREKAMKAWEQGKEFLE 398
Query: 153 EQVRDSPVLYTNRALTLLHL 172
+ D V LL L
Sbjct: 399 LLLADERVTKYLSEEELLEL 418
>gnl|CDD|225941 COG3407, MVD1, Mevalonate pyrophosphate decarboxylase [Lipid
metabolism].
Length = 329
Score = 27.3 bits (61), Expect = 7.1
Identities = 10/25 (40%), Positives = 12/25 (48%)
Query: 194 KAHLYKARAMHNLGQREEAKEYIRE 218
+ Y A H+ EE KE IRE
Sbjct: 202 TSPFYDAWLEHSEEDLEEMKEAIRE 226
Score = 27.3 bits (61), Expect = 8.6
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 115 KAHLYKARAMHSLGQREEAKEYVRQ 139
+ Y A HS EE KE +R+
Sbjct: 202 TSPFYDAWLEHSEEDLEEMKEAIRE 226
>gnl|CDD|223444 COG0367, AsnB, Asparagine synthase (glutamine-hydrolyzing) [Amino
acid transport and metabolism].
Length = 542
Score = 27.4 bits (61), Expect = 7.4
Identities = 20/118 (16%), Positives = 35/118 (29%), Gaps = 11/118 (9%)
Query: 118 LYKARAMHSLGQREEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLHLQLYDP 177
L+ +S + L RD +R ++ P
Sbjct: 345 LFGGYPPYSRFAPGPEELLNEALRRALA--LIDYNRLARD------DRVAAAFGVEARVP 396
Query: 178 VLPDCDKALRLD-EDNMKAHLYKARAMHNLGQREEAKEYIRELVEKYPTRRKLVENYT 234
L + + L + + L + R+M +R EL E+ P R K+ Y
Sbjct: 397 FL--DRELVDLALKIPPEHKLNRDRSMAKKLERRVPFSDGVELPEEIPWREKIAFGYG 452
>gnl|CDD|201250 pfam00476, DNA_pol_A, DNA polymerase family A.
Length = 383
Score = 27.3 bits (61), Expect = 7.8
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 2/58 (3%)
Query: 130 REEAKEYVRQLVEKYPTRRKLAIEQVRDSPVLYTNRALTLLHLQLYDPVLPDCDKALR 187
REEAKE++ + E++P ++ E+ R TL + Y P + +++LR
Sbjct: 237 REEAKEFIEKYFERFPGVKRY-REKTRKE-AKKGGYVETLFGRRRYLPDIDSRNRSLR 292
>gnl|CDD|106506 PRK13560, PRK13560, hypothetical protein; Provisional.
Length = 807
Score = 27.3 bits (60), Expect = 8.7
Identities = 8/39 (20%), Positives = 18/39 (46%)
Query: 107 LRLDEDNMKAHLYKARAMHSLGQREEAKEYVRQLVEKYP 145
+ ++ ++ H Y ARA+ ++ ++ R L P
Sbjct: 40 VEELQELLRGHAYDARAIAEAEAQDCREQCERNLKANIP 78
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
0.321 0.135 0.384
Gapped
Lambda K H
0.267 0.0733 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,625,498
Number of extensions: 1221356
Number of successful extensions: 2099
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2035
Number of HSP's successfully gapped: 154
Length of query: 240
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 146
Effective length of database: 6,768,326
Effective search space: 988175596
Effective search space used: 988175596
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: 57 (25.7 bits)