RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13014
(229 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 = 67.0 bits (164), Expect = 1e-14
Identities = 37/109 (33%), Positives = 54/109 (49%), Gaps = 11/109 (10%)
Query: 71 LKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPD 130
L + GN ++L + E+L Y +AL P + A Y N +AA Y L K +
Sbjct: 3 LLNLGNLYYKLGDYDEALEYYEKALELDPDN-----ADAYYNLAAA------YYKLGKYE 51
Query: 131 QSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPN 179
+++ KA+ L+P K Y Y + K +EAL Y+K LELDPN
Sbjct: 52 EALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
Score = 52.4 bits (126), Expect = 3e-09
Identities = 27/70 (38%), Positives = 36/70 (51%)
Query: 115 AALEKLASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKIL 174
A L Y L D+++ KA+ L+P Y A Y + K +EAL DY+K L
Sbjct: 2 ALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKAL 61
Query: 175 ELDPNNRDAY 184
ELDP+N AY
Sbjct: 62 ELDPDNAKAY 71
Score = 34.3 bits (79), Expect = 0.009
Identities = 17/37 (45%), Positives = 21/37 (56%)
Query: 148 KVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
+ LY + DEAL Y+K LELDP+N DAY
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAY 37
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 50.4 bits (121), Expect = 7e-09
Identities = 24/69 (34%), Positives = 36/69 (52%), Gaps = 2/69 (2%)
Query: 112 NRSAALEKLAS-YLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQS-DKLDEALAD 169
+ + AL+ L + L D++I A KA+ L+P + Y A Y + +EAL D
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALED 60
Query: 170 YQKILELDP 178
+K LELDP
Sbjct: 61 LEKALELDP 69
Score = 50.4 bits (121), Expect = 7e-09
Identities = 24/79 (30%), Positives = 40/79 (50%), Gaps = 10/79 (12%)
Query: 66 QTAISLKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLS 125
A +LK+ GNALF+L + E++ Y +AL P + A Y N + A KL
Sbjct: 1 DNAEALKNLGNALFKLGDYDEAIEAYEKALELDPDN-----AEAYYNLALAYLKL----- 50
Query: 126 LEKPDQSILACSKAITLNP 144
+ ++++ KA+ L+P
Sbjct: 51 GKDYEEALEDLEKALELDP 69
Score = 38.1 bits (89), Expect = 2e-04
Identities = 13/37 (35%), Positives = 20/37 (54%)
Query: 148 KVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
+ + + DEA+ Y+K LELDP+N +AY
Sbjct: 4 EALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAY 40
>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 = 53.8 bits (129), Expect = 2e-08
Identities = 35/146 (23%), Positives = 64/146 (43%), Gaps = 19/146 (13%)
Query: 59 FCSQKLEQTAISLKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALE 118
++ ++ A LK++GN +R +++++ Y++A+ P V+Y+NR+A
Sbjct: 118 LSEEERKKYAAKLKEKGNKAYRNKDFNKAIKLYSKAIECKPDP------VYYSNRAAC-- 169
Query: 119 KLASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDP 178
+ +L ++ + + A+ L+P Y K RRA Y K +AL D +
Sbjct: 170 ----HNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGLGKYADALLDLT-ASCIID 224
Query: 179 NNRDAYVATKVSPDL------KLKEK 198
R+ A V L K KE
Sbjct: 225 GFRNEQSAQAVERLLKKFAESKAKEI 250
Score = 38.8 bits (90), Expect = 0.002
Identities = 30/123 (24%), Positives = 53/123 (43%), Gaps = 15/123 (12%)
Query: 65 EQTAISLKDEGNALFRLNQWSESLAKYNEALRSCPR--SCSVSRAVFYANRSAALEKLAS 122
E+ AI+L G + E+LA ++++ PR + RA
Sbjct: 328 EKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGD------- 380
Query: 123 YLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRD 182
PD++ KA+ LN +Y RA+L+ + +A DYQK ++LDP+
Sbjct: 381 ------PDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIF 434
Query: 183 AYV 185
+++
Sbjct: 435 SHI 437
>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 = 45.0 bits (107), Expect = 1e-05
Identities = 22/114 (19%), Positives = 45/114 (39%), Gaps = 21/114 (18%)
Query: 77 ALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYA-----NRSAALEKLASYLSLEKPDQ 131
A QW ++L Y + L+ P + + + AL+ L Y++ D
Sbjct: 95 AYRNEKQWDKALELYRKLLQRDPNNPDGLLGLALTLADAGKDAEALKYLKEYVARFPTDA 154
Query: 132 SILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAYV 185
+ Y+ A + + ++ +AL +Q+ L L+P+N +A +
Sbjct: 155 A----------------RYEALAYVLRAAEDHLDALQAWQQALTLEPDNPEAAL 192
Score = 29.6 bits (67), Expect = 1.6
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 154 ARLYQQSDKLDEALADYQKILELDPNNRDA 183
A+ Y+ + D+AL Y+K+L+ DPNN D
Sbjct: 93 AKAYRNEKQWDKALELYRKLLQRDPNNPDG 122
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 39.7 bits (94), Expect = 2e-05
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 148 KVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
K Y + K DEAL Y+K LEL+PNN
Sbjct: 2 KALYNLGNAYLKLGKYDEALEYYEKALELNPNN 34
Score = 28.5 bits (65), Expect = 0.24
Identities = 10/24 (41%), Positives = 15/24 (62%)
Query: 123 YLSLEKPDQSILACSKAITLNPSY 146
YL L K D+++ KA+ LNP+
Sbjct: 11 YLKLGKYDEALEYYEKALELNPNN 34
>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 = 39.0 bits (92), Expect = 5e-05
Identities = 14/33 (42%), Positives = 17/33 (51%)
Query: 148 KVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
+ Y + DEAL Y+K LELDPNN
Sbjct: 2 EALYNLGNAYLKLGDYDEALEYYEKALELDPNN 34
Score = 26.3 bits (59), Expect = 1.8
Identities = 8/24 (33%), Positives = 14/24 (58%)
Query: 123 YLSLEKPDQSILACSKAITLNPSY 146
YL L D+++ KA+ L+P+
Sbjct: 11 YLKLGDYDEALEYYEKALELDPNN 34
Score = 25.5 bits (57), Expect = 3.7
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 68 AISLKDEGNALFRLNQWSESLAKYNEALRSCP 99
A +L + GNA +L + E+L Y +AL P
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDP 32
>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 = 37.9 bits (89), Expect = 1e-04
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 148 KVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
+ Y + +EAL Y+K LELDPNN
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELDPNN 34
Score = 28.2 bits (64), Expect = 0.31
Identities = 11/33 (33%), Positives = 18/33 (54%)
Query: 68 AISLKDEGNALFRLNQWSESLAKYNEALRSCPR 100
A +L + G A ++L + E+L Y +AL P
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPN 33
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 41.0 bits (94), Expect = 3e-04
Identities = 32/118 (27%), Positives = 54/118 (45%), Gaps = 3/118 (2%)
Query: 62 QKLEQTAISLKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLA 121
+K + L + AL L E+L +Y EAL ++ ++ + A L
Sbjct: 154 EKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPD---DDAEALLNLGL 210
Query: 122 SYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPN 179
YL L K ++++ KA+ L+P + A L + + +EAL +K LELDP+
Sbjct: 211 LYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD 268
Score = 37.1 bits (84), Expect = 0.005
Identities = 33/110 (30%), Positives = 50/110 (45%), Gaps = 9/110 (8%)
Query: 76 NALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPDQSILA 135
AL+ L + E+L Y +AL P A L A +L + ++++
Sbjct: 138 GALYELGDYEEALELYEKALELDPEL--------NELAEALLALGALLEALGRYEEALEL 189
Query: 136 CSKAITLNPS-YLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
KA+ LNP + LY + K +EAL Y+K LELDP+N +A
Sbjct: 190 LEKALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEAL 239
Score = 30.6 bits (67), Expect = 0.69
Identities = 32/147 (21%), Positives = 52/147 (35%), Gaps = 7/147 (4%)
Query: 55 LFYLFCSQKLEQTAISLKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRS 114
+ ++ L + L+ L L + +E+L EAL P S A +
Sbjct: 10 ILLEALAKLLAEALALLEAGLALLELLGELAEALELLEEALELLPNS---DLAGLLLLLA 66
Query: 115 AALEKLASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKIL 174
AL KL + + L L P+ + L + K +EAL +K L
Sbjct: 67 LALLKLGRLEEALELLEKALELE----LLPNLAEALLNLGLLLEALGKYEEALELLEKAL 122
Query: 175 ELDPNNRDAYVATKVSPDLKLKEKNGA 201
LDP+ A + +L + A
Sbjct: 123 ALDPDPDLAEALLALGALYELGDYEEA 149
Score = 29.0 bits (63), Expect = 2.1
Identities = 28/128 (21%), Positives = 44/128 (34%), Gaps = 3/128 (2%)
Query: 73 DEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPDQS 132
D L L L + EAL ++ + + A L +L K +++
Sbjct: 57 DLAGLLLLLALALLKLGRLEEALELLEKA--LELELLPNLAEALLNLGLLLEALGKYEEA 114
Query: 133 ILACSKAITLNPSYLKVYQRRAR-LYQQSDKLDEALADYQKILELDPNNRDAYVATKVSP 191
+ KA+ L+P A + +EAL Y+K LELDP + A
Sbjct: 115 LELLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALG 174
Query: 192 DLKLKEKN 199
L
Sbjct: 175 ALLEALGR 182
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 37.1 bits (87), Expect = 3e-04
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 147 LKVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
+ Y ++Y Q +EA Y+K LELDPNN
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
>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 = 40.4 bits (95), Expect = 3e-04
Identities = 23/91 (25%), Positives = 38/91 (41%), Gaps = 8/91 (8%)
Query: 102 CSVSRAVFYANRSAALEKLA--------SYLSLEKPDQSILACSKAITLNPSYLKVYQRR 153
C + V ++R+ K A YL + + KA+ +P Y
Sbjct: 12 CVTTPDVPRSSRTTDRNKAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLAL 71
Query: 154 ARLYQQSDKLDEALADYQKILELDPNNRDAY 184
A YQQ +L++A +++ L L+PNN D
Sbjct: 72 ALYYQQLGELEKAEDSFRRALTLNPNNGDVL 102
>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 = 40.5 bits (95), Expect = 5e-04
Identities = 34/143 (23%), Positives = 54/143 (37%), Gaps = 12/143 (8%)
Query: 61 SQKLEQTAISLKDEGNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKL 120
E A L G A L Q + Y +AL PRS L +L
Sbjct: 118 LLDDEGAAELLALRGLAYLGLGQLELAQKSYEQALAIDPRSLYAK---------LGLAQL 168
Query: 121 ASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
A L+ + D++ + +T +P + + L ++ ALA Y+K + L PNN
Sbjct: 169 A--LAENRFDEARALIDEVLTADPGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNN 226
Query: 181 RDAYVATKVSPDLKLKEKNGATK 203
+A + ++ E A K
Sbjct: 227 IAVLLA-LATILIEAGEFEEAEK 248
Score = 40.5 bits (95), Expect = 5e-04
Identities = 21/114 (18%), Positives = 43/114 (37%), Gaps = 15/114 (13%)
Query: 76 NALFRL----NQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPDQ 131
AL L E++A +A P AL YL + +
Sbjct: 537 LALAGLYLRTGNEEEAVAWLEKAAELNP-----------QEIEPALALAQYYLGKGQLKK 585
Query: 132 SILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAYV 185
++ ++A P + + R + L++A++ ++K+L L P++ A +
Sbjct: 586 ALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALL 639
Score = 36.6 bits (85), Expect = 0.009
Identities = 30/153 (19%), Positives = 59/153 (38%), Gaps = 31/153 (20%)
Query: 74 EGNALFRLNQWSESLAKYNEALRSCPRSCSVSR----AVFYANRSAALEKLASYLSLEKP 129
EG+ R + ++ Y +AL+ P S + + + N + A++ L ++L
Sbjct: 709 EGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKT--- 765
Query: 130 DQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPN-----NRDAY 184
+P+ + A LY D+A+ YQ +++ P+ N A+
Sbjct: 766 -------------HPNDAVLRTALAELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNNLAW 812
Query: 185 VATKVSPDLKLKEKNGATKLSPDVFLHPGQPQI 217
+ ++ L+ A KL+ P P I
Sbjct: 813 LYLELKDPRALEYAERALKLA------PNIPAI 839
Score = 35.4 bits (82), Expect = 0.019
Identities = 26/110 (23%), Positives = 41/110 (37%), Gaps = 11/110 (10%)
Query: 75 GNALFRLNQWSESLAKYNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPDQSIL 134
G + ++L ++ N+ L+ P S A R A + L L + D++I
Sbjct: 302 GASEYQLGNLEQAYQYLNQILKYAPNS-------HQARRLLA----SIQLRLGRVDEAIA 350
Query: 135 ACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
S A+ L+P Y ++A K ELDP N A
Sbjct: 351 TLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAAR 400
Score = 33.9 bits (78), Expect = 0.060
Identities = 18/63 (28%), Positives = 31/63 (49%)
Query: 121 ASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
A YL ++ A KA+++ P + AR+ Q D+A+ ++K+L +DP N
Sbjct: 473 AIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKN 532
Query: 181 RDA 183
A
Sbjct: 533 LRA 535
Score = 31.2 bits (71), Expect = 0.49
Identities = 15/70 (21%), Positives = 28/70 (40%), Gaps = 1/70 (1%)
Query: 115 AALEKLAS-YLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKI 173
A L L+ ++++ + K + L P A Y +A+ ++
Sbjct: 602 EAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRA 661
Query: 174 LELDPNNRDA 183
LEL P+N +A
Sbjct: 662 LELKPDNTEA 671
Score = 30.8 bits (70), Expect = 0.62
Identities = 26/104 (25%), Positives = 43/104 (41%), Gaps = 1/104 (0%)
Query: 115 AALEKLASY-LSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKI 173
A LA + PD +I K +T++P L+ A LY ++ +EA+A +K
Sbjct: 500 PAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKA 559
Query: 174 LELDPNNRDAYVATKVSPDLKLKEKNGATKLSPDVFLHPGQPQI 217
EL+P + +A K + K L+ P P+
Sbjct: 560 AELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEA 603
Score = 27.7 bits (62), Expect = 5.7
Identities = 13/66 (19%), Positives = 28/66 (42%), Gaps = 1/66 (1%)
Query: 115 AALEKLAS-YLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKI 173
AL LA Y ++ ++I + +A+ L P + A+L + + + A + +
Sbjct: 636 LALLLLADAYAVMKNYAKAITSLKRALELKPDNTEAQIGLAQLLLAAKRTESAKKIAKSL 695
Query: 174 LELDPN 179
+ P
Sbjct: 696 QKQHPK 701
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 36.5 bits (85), Expect = 8e-04
Identities = 13/64 (20%), Positives = 24/64 (37%)
Query: 117 LEKLASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILEL 176
L + L D+++ A A+ P + + +L EA A + L
Sbjct: 1 LALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAA 60
Query: 177 DPNN 180
DP++
Sbjct: 61 DPDD 64
Score = 28.4 bits (64), Expect = 0.52
Identities = 10/33 (30%), Positives = 14/33 (42%)
Query: 152 RRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
AR ++ DEALA + L P +A
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEAL 34
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 37.8 bits (88), Expect = 0.003
Identities = 18/48 (37%), Positives = 29/48 (60%)
Query: 137 SKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
++AI L+P+ ++Y RA+ + EA+AD K +ELDP+ AY
Sbjct: 26 TQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAY 73
Score = 30.5 bits (69), Expect = 0.64
Identities = 19/64 (29%), Positives = 32/64 (50%), Gaps = 11/64 (17%)
Query: 91 YNEALRSCPRSCSVSRAVFYANRSAALEKLASYLSLEKPDQSILACSKAITLNPSYLKVY 150
Y +A+ P + A YA+R+ A KL ++ +++ +KAI L+PS K Y
Sbjct: 25 YTQAIDLDP-----NNAELYADRAQANIKLGNF------TEAVADANKAIELDPSLAKAY 73
Query: 151 QRRA 154
R+
Sbjct: 74 LRKG 77
>gnl|CDD|222122 pfam13429, TPR_15, Tetratricopeptide repeat.
Length = 279
Score = 36.9 bits (86), Expect = 0.005
Identities = 21/84 (25%), Positives = 34/84 (40%), Gaps = 18/84 (21%)
Query: 104 VSRAVFYANRSAALEK----LASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQ 159
+ A++ R+ ++ LAS E +QS RA Y+Q
Sbjct: 112 LQSALYLYTRAGDYKRIVDLLASLTPEEAAEQSAG--------------FLSARAEYYRQ 157
Query: 160 SDKLDEALADYQKILELDPNNRDA 183
+ + D AL DY++ L L P + D
Sbjct: 158 TGQPDAALRDYRRALALPPASSDL 181
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 34.3 bits (79), Expect = 0.006
Identities = 22/73 (30%), Positives = 29/73 (39%), Gaps = 8/73 (10%)
Query: 115 AALEKLAS-YLSLEKPDQSILACSKAITL-------NPSYLKVYQRRARLYQQSDKLDEA 166
AAL LA L D+++ KA+ L +P + ARLY DEA
Sbjct: 6 AALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALGDYDEA 65
Query: 167 LADYQKILELDPN 179
L +K L L
Sbjct: 66 LEYLEKALALREA 78
Score = 27.7 bits (62), Expect = 1.4
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 143 NPSYLKVYQRRARLYQQSDKLDEALADYQKILEL 176
+P A + ++ DEAL +K LEL
Sbjct: 1 HPDLAAALNNLALVLRRLGDYDEALELLEKALEL 34
>gnl|CDD|222121 pfam13428, TPR_14, Tetratricopeptide repeat.
Length = 44
Score = 33.3 bits (76), Expect = 0.007
Identities = 13/40 (32%), Positives = 19/40 (47%)
Query: 147 LKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAYVA 186
AR LDEALA ++ L LDP++ +A +
Sbjct: 1 PAALLALARALLALGDLDEALALLRRALALDPDDPEALLL 40
Score = 24.8 bits (54), Expect = 7.4
Identities = 11/42 (26%), Positives = 20/42 (47%)
Query: 115 AALEKLASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARL 156
A L + L+L D+++ +A+ L+P + ARL
Sbjct: 3 ALLALARALLALGDLDEALALLRRALALDPDDPEALLLLARL 44
>gnl|CDD|205550 pfam13371, TPR_9, Tetratricopeptide repeat.
Length = 73
Score = 33.7 bits (78), Expect = 0.008
Identities = 20/63 (31%), Positives = 29/63 (46%)
Query: 121 ASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
A YL E ++++ + + L P + R LY Q ALAD + LEL P+
Sbjct: 3 AIYLREEDFERALAVVERLLLLAPDDPYERRDRGLLYAQLGCFQAALADLEYFLELCPDA 62
Query: 181 RDA 183
DA
Sbjct: 63 PDA 65
>gnl|CDD|227343 COG5010, TadD, Flp pilus assembly protein TadD, contains TPR
repeats [Intracellular trafficking and secretion].
Length = 257
Score = 34.7 bits (80), Expect = 0.026
Identities = 20/90 (22%), Positives = 36/90 (40%)
Query: 131 QSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAYVATKVS 190
+++ KA L P+ + + Q + DEA Y++ LEL PN +S
Sbjct: 118 EAVSVLRKAARLAPTDWEAWNLLGAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMS 177
Query: 191 PDLKLKEKNGATKLSPDVFLHPGQPQIQHN 220
L+ ++ T L P +++ N
Sbjct: 178 LLLRGDLEDAETLLLPAYLSPAADSRVRQN 207
>gnl|CDD|225605 COG3063, PilF, Tfp pilus assembly protein PilF [Cell motility and
secretion / Intracellular trafficking and secretion].
Length = 250
Score = 32.8 bits (75), Expect = 0.092
Identities = 19/45 (42%), Positives = 25/45 (55%)
Query: 138 KAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRD 182
KA+ +PSY + RA YQ+ + D A Y+K L L PNN D
Sbjct: 60 KALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGD 104
>gnl|CDD|219819 pfam08395, 7tm_7, 7tm Chemosensory receptor. This family includes
a number of gustatory and odorant receptors mainly from
insect species such as A. gambiae and D. melanogaster.
They are classified as G-protein-coupled receptors
(GPCRs), or seven-transmembrane receptors. They show
high sequence divergence, consistent with an ancient
origin for the family.
Length = 370
Score = 33.1 bits (76), Expect = 0.095
Identities = 12/66 (18%), Positives = 26/66 (39%), Gaps = 7/66 (10%)
Query: 15 SFLYTIYFSCFILFILFSEIRTDCHQFERQVFYIQFIFHVLFYLF-------CSQKLEQT 67
LY +++ L+S + F VF + + +L + S + ++T
Sbjct: 243 ILLYNFLNITVLIYWLYSILLLGSSGFTLLVFVLWLLIFLLLLVLIVYACNLISNEAKKT 302
Query: 68 AISLKD 73
A+ L+
Sbjct: 303 ALLLRR 308
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 29.5 bits (67), Expect = 0.13
Identities = 11/34 (32%), Positives = 16/34 (47%)
Query: 135 ACSKAITLNPSYLKVYQRRARLYQQSDKLDEALA 168
KA+ L+P+ + Y A L + DEAL
Sbjct: 1 LYEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
>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 = 31.5 bits (72), Expect = 0.15
Identities = 10/39 (25%), Positives = 18/39 (46%)
Query: 146 YLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
L+ + A + +EALA +++L LDP +
Sbjct: 60 RLEALEALAEALLALGRHEEALALLERLLALDPLRERLH 98
Score = 28.0 bits (63), Expect = 2.2
Identities = 15/60 (25%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 113 RSAALEKLA-SYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQ 171
R ALE LA + L+L + ++++ + + L+P ++++ R ++ + EAL Y+
Sbjct: 60 RLEALEALAEALLALGRHEEALALLERLLALDPLRERLHRLLMRALYRAGRRAEALRAYR 119
>gnl|CDD|188151 TIGR01517, ATPase-IIB_Ca, plasma-membrane calcium-translocating
P-type ATPase. This model describes the P-type ATPase
responsible for translocating calcium ions across the
plasma membrane of eukaryotes , out of the cell. In some
organisms, this type of pump may also be found in
vacuolar membranes. In humans and mice, at least, there
are multiple isoforms of the PMCA pump with overlapping
but not redundant functions. Accordingly, there are no
human diseases linked to PMCA defects, although
alterations of PMCA function do elicit physiological
effects. The calcium P-type ATPases have been
characterized as Type IIB based on a phylogenetic
analysis which distinguishes this group from the Type
IIA SERCA calcium pump. A separate analysis divides Type
IIA into sub-types (SERCA and PMR1) which are modelled
by TIGR01116 and TIGR01522. This model is well separated
from those.
Length = 944
Score = 31.7 bits (72), Expect = 0.33
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 7 QQELSKNPSFLYTIYFSCFILFILFSEI 34
+ S L TI F+ F+L LF+EI
Sbjct: 842 DEITSHQQGELNTIVFNTFVLLQLFNEI 869
>gnl|CDD|227310 COG4976, COG4976, Predicted methyltransferase (contains TPR repeat)
[General function prediction only].
Length = 287
Score = 30.9 bits (70), Expect = 0.45
Identities = 17/63 (26%), Positives = 32/63 (50%), Gaps = 2/63 (3%)
Query: 121 ASYLSLEKPDQSILA--CSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDP 178
+Y+ E D A ++A+ L P + + R +++ + D A A Y+++LELDP
Sbjct: 1 YAYMLAESGDAEAAAELYNQALELAPEWAAGWFRLGEYTEKAGEFDAAAAAYEEVLELDP 60
Query: 179 NNR 181
+
Sbjct: 61 EDH 63
>gnl|CDD|226687 COG4235, COG4235, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 287
Score = 30.4 bits (69), Expect = 0.60
Identities = 13/68 (19%), Positives = 26/68 (38%)
Query: 120 LASYLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPN 179
LA + ++ + I + NP + + R Y + +AL Y+ L L +
Sbjct: 129 LAQPPAEQEMEALIARLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGD 188
Query: 180 NRDAYVAT 187
N + +
Sbjct: 189 NPEILLGL 196
>gnl|CDD|221641 pfam12569, NARP1, NMDA receptor-regulated protein 1. This domain
family is found in eukaryotes, and is approximately 40
amino acids in length. The family is found in
association with pfam07719, pfam00515. There is a single
completely conserved residue L that may be functionally
important. NARP1 is the mammalian homologue of a yeast
N-terminal acetyltransferase that regulates entry into
the G(0) phase of the cell cycle.
Length = 516
Score = 30.3 bits (69), Expect = 0.92
Identities = 14/38 (36%), Positives = 22/38 (57%)
Query: 147 LKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
L V + RA L + + +EA A Y+ +L+ +P N D Y
Sbjct: 38 LAVMEMRADLLLKLGRKEEAEATYRALLDRNPENYDYY 75
>gnl|CDD|183140 PRK11447, PRK11447, cellulose synthase subunit BcsC; Provisional.
Length = 1157
Score = 30.1 bits (68), Expect = 1.2
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 158 QQSDKLDEALADYQKILELDPNNRDA 183
QQ A A YQ++L +P N DA
Sbjct: 614 QQRGDYAAARAAYQRVLTREPGNADA 639
>gnl|CDD|226615 COG4130, COG4130, Predicted sugar epimerase [Carbohydrate transport
and metabolism].
Length = 272
Score = 29.4 bits (66), Expect = 1.3
Identities = 8/27 (29%), Positives = 12/27 (44%)
Query: 76 NALFRLNQWSESLAKYNEALRSCPRSC 102
NAL+ N+W+E L +C
Sbjct: 69 NALYPFNEWTEERVAEARGLADYAAAC 95
>gnl|CDD|236624 PRK09782, PRK09782, bacteriophage N4 receptor, outer membrane
subunit; Provisional.
Length = 987
Score = 29.9 bits (67), Expect = 1.4
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 1/43 (2%)
Query: 138 KAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNN 180
+++ + PS Y RA +Y+Q + A++D + LEL+PNN
Sbjct: 601 RSLNIAPS-ANAYVARATIYRQRHNVPAAVSDLRAALELEPNN 642
>gnl|CDD|233595 TIGR01845, outer_NodT, efflux transporter, outer membrane factor
(OMF) lipoprotein, NodT family. Members of This model
comprise a subfamily of the Outer Membrane Factor (TCDB
1.B.17) porins. OMF proteins operate in conjunction with
a primary transporter of the RND, MFS, ABC, or PET
systems, and a MFP (membrane fusion protein) to tranport
substrates across membranes. The complex thus formed
allows transport (export) of various solutes (heavy
metal cations; drugs, oligosaccharides, proteins, etc.)
across the two envelopes of the Gram-negative bacterial
cell envelope in a single energy-coupled step. Current
data suggest that the OMF (and not the MFP) is largely
responsible for the formation of both the trans-outer
membrane and trans-periplasmic channels. The roles
played by the MFP have yet to be determined [Cellular
processes, Detoxification, Transport and binding
proteins, Porins].
Length = 454
Score = 29.7 bits (67), Expect = 1.4
Identities = 15/41 (36%), Positives = 17/41 (41%)
Query: 150 YQRRARLYQQSDKLDEALADYQKILELDPNNRDAYVATKVS 190
Y + A L Q D ALA +K LEL A VA
Sbjct: 169 YVQLAALRAQLDVYHAALASRRKTLELTQKRYAAGVAAASD 209
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 29.7 bits (67), Expect = 1.4
Identities = 12/63 (19%), Positives = 23/63 (36%)
Query: 123 YLSLEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRD 182
L KP ++I ++ + +P + A+ Y + EAL + L
Sbjct: 384 LLKGGKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLARAEGYALAGRLEQ 443
Query: 183 AYV 185
A +
Sbjct: 444 AII 446
>gnl|CDD|215174 PLN02305, PLN02305, lipoxygenase.
Length = 918
Score = 29.1 bits (65), Expect = 2.1
Identities = 21/66 (31%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 62 QKLEQTAISLKDEGNALFRLNQWSESLAKYNEALRSCP-RSCSVSRAVFYANRSAALEKL 120
++LE + E LF L+ + + L + E + S P R SR VF+ +++ AL +
Sbjct: 467 RELEGMTVEKAIEEKRLFILD-YHDMLLPFIEKMNSLPERKAYASRTVFFYSKAGALRPI 525
Query: 121 ASYLSL 126
A LSL
Sbjct: 526 AIELSL 531
>gnl|CDD|221956 pfam13174, TPR_6, Tetratricopeptide repeat.
Length = 33
Score = 25.9 bits (58), Expect = 2.3
Identities = 7/29 (24%), Positives = 15/29 (51%)
Query: 152 RRARLYQQSDKLDEALADYQKILELDPNN 180
+ A Y + DEA +++L+ P++
Sbjct: 5 KLALAYLKLGDTDEAKEALERLLKRYPDS 33
>gnl|CDD|173038 PRK14574, hmsH, outer membrane protein; Provisional.
Length = 822
Score = 29.3 bits (65), Expect = 2.3
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 154 ARLYQQSDKLDEALADYQKILELDPNNRD 182
AR Y+ + D+ALA +Q L+ DP N D
Sbjct: 109 ARAYRNEKRWDQALALWQSSLKKDPTNPD 137
>gnl|CDD|190882 pfam04144, SCAMP, SCAMP family. In vertebrates, secretory carrier
membrane proteins (SCAMPs) 1-3 constitute a family of
putative membrane-trafficking proteins composed of
cytoplasmic N-terminal sequences with NPF repeats, four
central transmembrane regions (TMRs), and a cytoplasmic
tail. SCAMPs probably function in endocytosis by
recruiting EH-domain proteins to the N-terminal NPF
repeats but may have additional functions mediated by
their other sequences.
Length = 177
Score = 28.3 bits (64), Expect = 2.3
Identities = 13/51 (25%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 16 FLYTIYFSCFI--LFIL-----FSEIRTDCHQFERQVFYIQFIFHVLFYLF 59
L +YF F+ + RTD F F+ F H+LF +
Sbjct: 69 GLSILYFILGTPGSFVCWYRPVYKAFRTD-SSFNFFWFFFIFFLHILFCII 118
>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region. GTR1
was first identified in S. cerevisiae as a suppressor of
a mutation in RCC1. Biochemical analysis revealed that
Gtr1 is in fact a G protein of the Ras family. The
RagA/B proteins are the human homologues of Gtr1.
Included in this family is the human Rag C, a novel
protein that has been shown to interact with RagA/B.
Length = 230
Score = 28.7 bits (65), Expect = 2.4
Identities = 12/53 (22%), Positives = 20/53 (37%), Gaps = 20/53 (37%)
Query: 159 QSDKLDEALADYQKILELDPNNRDAYVATKVSPDLKLKEKNGATKLSPDVFLH 211
+S + +E LA KI+E + SP+ K+ V +H
Sbjct: 87 ESREYEEDLATLVKIIEA---------LYQYSPNAKV-----------FVLIH 119
>gnl|CDD|226355 COG3835, CdaR, Sugar diacid utilization regulator [Transcription /
Signal transduction mechanisms].
Length = 376
Score = 28.1 bits (63), Expect = 4.0
Identities = 17/57 (29%), Positives = 24/57 (42%), Gaps = 7/57 (12%)
Query: 114 SAALEKLASYLS--LEKPDQSILACSKAITLNPSYLKVYQRRARLYQQSDKLDEALA 168
+ +L + A L L KP +IL + L QR ARL Q S+ +A
Sbjct: 143 TPSLAEWAQRLGIDLSKPRVAIL-----VEGYNEQLHNLQRMARLIQSSESRRNDVA 194
>gnl|CDD|236875 PRK11189, PRK11189, lipoprotein NlpI; Provisional.
Length = 296
Score = 27.5 bits (62), Expect = 5.4
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 12/54 (22%)
Query: 137 SKAITLNP------SYLKVYQRRARLYQQSDKLDEALADYQKILELDPNNRDAY 184
S+A+ L P +YL +Y Q+ D A + +LELDP AY
Sbjct: 88 SQALALRPDMADAYNYLGIY------LTQAGNFDAAYEAFDSVLELDPTYNYAY 135
>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 = 27.1 bits (61), Expect = 6.3
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 150 YQRRARL-----YQQSDKLDEALADYQKILELDPNNRDA-YV 185
Y +A+L Y +S EA+A + + L PN+ DA Y
Sbjct: 68 YAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA 109
>gnl|CDD|132753 cd07068, NR_LBD_ER_like, The ligand binding domain of estrogen
receptor and estrogen receptor-related receptors. The
ligand binding domain of estrogen receptor (ER) and
estrogen receptor-related receptors (ERRs): Estrogen
receptors are a group of receptors which are activated
by the hormone estrogen. Estrogen regulates many
physiological processes including reproduction, bone
integrity, cardiovascular health, and behavior. The main
mechanism of action of the estrogen receptor is as a
transcription factor by binding to the estrogen response
element of target genes upon activation by estrogen and
then recruiting coactivator proteins which are
responsible for the transcription of target genes.
Additionally some ERs may associate with other membrane
proteins and can be rapidly activated by exposure of
cells to estrogen. ERRs are closely related to the
estrogen receptor (ER) family. But, it lacks the ability
to bind estrogen. ERRs can interfere with the classic
ER-mediated estrogen signaling pathway, positively or
negatively. ERRs share target genes, co-regulators and
promoters with the estrogen receptor (ER) family. Like
other members of the nuclear receptor (NR) superfamily
of ligand-activated transcription factors, ER and ERRs
have a central well conserved DNA binding domain (DBD),
a variable N-terminal domain, a non-conserved hinge and
a C-terminal ligand binding domain (LBD).
Length = 221
Score = 27.2 bits (61), Expect = 7.2
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 136 CSKAITLNPSYLKVYQRRARLYQQSDKLDEALADY 170
C KAI L S ++ + R + Q D + +AL D
Sbjct: 132 CLKAIILANSDVRHLEDREAVQQLRDAILDALVDV 166
>gnl|CDD|131117 TIGR02062, RNase_B, exoribonuclease II. This family consists of
exoribonuclease II, the product of the rnb gene, as
found in a number of gamma proteobacteria. In
Escherichia coli, it is one of eight different
exoribonucleases. It is involved in mRNA degradation and
tRNA precursor end processing [Transcription,
Degradation of RNA].
Length = 639
Score = 27.5 bits (61), Expect = 7.7
Identities = 9/25 (36%), Positives = 12/25 (48%)
Query: 199 NGATKLSPDVFLHPGQPQIQHNPET 223
NGA P FLH + ++ N E
Sbjct: 580 NGAIAFIPAAFLHANREELVCNQEN 604
>gnl|CDD|236027 PRK07483, PRK07483, hypothetical protein; Provisional.
Length = 443
Score = 27.2 bits (61), Expect = 8.2
Identities = 18/42 (42%), Positives = 23/42 (54%), Gaps = 6/42 (14%)
Query: 154 ARLYQQSDKLDEA----LADY--QKILELDPNNRDAYVATKV 189
A Q++ + DEA LAD KILEL P+ A+VA V
Sbjct: 167 AYREQRAGESDEAYGQRLADELEAKILELGPDTVAAFVAETV 208
>gnl|CDD|132534 TIGR03495, phage_LysB, phage lysis regulatory protein, LysB family.
Members of this protein family are phage lysis
regulatory protein, including the well-studied protein
LysB (lysis protein B) of Enterobacteria phage P2. For
members of this family, genes are found in phage or in
prophage regions of bacterial genomes, typically near a
phage lysozyme or phage holin.
Length = 135
Score = 26.2 bits (58), Expect = 8.6
Identities = 7/25 (28%), Positives = 14/25 (56%)
Query: 151 QRRARLYQQSDKLDEALADYQKILE 175
+ +A+L QQ + LA ++ +E
Sbjct: 61 EAQAQLRQQLAQARALLAQREQRIE 85
>gnl|CDD|237338 PRK13298, PRK13298, tRNA CCA-pyrophosphorylase; Provisional.
Length = 417
Score = 27.0 bits (60), Expect = 8.7
Identities = 13/49 (26%), Positives = 21/49 (42%), Gaps = 5/49 (10%)
Query: 13 NPSFLYTIYFSCFILFILFSEIRTDCHQFERQVFYIQFI--FHVLFYLF 59
NP + + + C L LF EI +E+ F F F++ Y+
Sbjct: 189 NPHVYFQVLYECNALKFLFPEID---FLYEKPYFLNSFFKKFNLGNYIL 234
>gnl|CDD|178613 PLN03055, PLN03055, AMP deaminase; Provisional.
Length = 602
Score = 27.1 bits (60), Expect = 8.7
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 5/68 (7%)
Query: 160 SDKLDEALADYQKILELDPNNRDAYV-ATKVSPDLKLKEKNGATKLSPDVFLHPGQPQIQ 218
SD+ +E A Q+ LEL RD Y+ K+ P K ++ +K +PD F + +P Q
Sbjct: 5 SDEEEEVCAMMQECLEL----RDKYLFREKLPPWRKGIFESSTSKPNPDPFRYEPEPPSQ 60
Query: 219 HNPETIHG 226
H + G
Sbjct: 61 HVFRMVDG 68
>gnl|CDD|221958 pfam13176, TPR_7, Tetratricopeptide repeat.
Length = 36
Score = 24.5 bits (54), Expect = 8.9
Identities = 8/30 (26%), Positives = 17/30 (56%)
Query: 154 ARLYQQSDKLDEALADYQKILELDPNNRDA 183
RLY++ ++A++ Y++ L L + D
Sbjct: 6 GRLYRKLGDYEKAISLYERALALAKDPEDR 35
>gnl|CDD|217077 pfam02514, CobN-Mg_chel, CobN/Magnesium Chelatase. This family
contains a domain common to the cobN protein and to
magnesium protoporphyrin chelatase. CobN is implicated
in the conversion of hydrogenobyrinic acid a,c-diamide
to cobyrinic acid. Magnesium protoporphyrin chelatase is
involved in chlorophyll biosynthesis.
Length = 1079
Score = 27.2 bits (61), Expect = 9.7
Identities = 12/32 (37%), Positives = 20/32 (62%)
Query: 153 RARLYQQSDKLDEALADYQKILELDPNNRDAY 184
RA LY + +L+E + +Y++ LDP R+A
Sbjct: 495 RAGLYGELAELEELIDEYREADGLDPARREAL 526
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 0.397
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: 11,669,023
Number of extensions: 1081621
Number of successful extensions: 1410
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1384
Number of HSP's successfully gapped: 113
Length of query: 229
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 135
Effective length of database: 6,768,326
Effective search space: 913724010
Effective search space used: 913724010
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)