RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy11461
(253 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 = 74.0 bits (182), Expect = 4e-17
Identities = 33/94 (35%), Positives = 54/94 (57%)
Query: 15 KELKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKA 74
+ L + GN Y+ L Y+EA+ Y +A+ +P + N A Y KL +Y +D KA
Sbjct: 1 EALLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKA 60
Query: 75 LELEPSLVKAQFFLGQALHEINHYDEAVKHLQRA 108
LEL+P KA + LG A +++ Y+EA++ ++A
Sbjct: 61 LELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKA 94
Score = 43.9 bits (104), Expect = 4e-06
Identities = 21/60 (35%), Positives = 32/60 (53%)
Query: 21 GNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPS 80
Y+ L +YEEA+ Y +A+ +P + N L Y KL +Y + KALEL+P+
Sbjct: 41 AAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYEEALEAYEKALELDPN 100
>gnl|CDD|203049 pfam04564, U-box, U-box domain. This domain is related to the Ring
finger pfam00097 but lacks the zinc binding residues.
Length = 73
Score = 58.8 bits (143), Expect = 9e-12
Identities = 20/44 (45%), Positives = 26/44 (59%)
Query: 206 AIDERRRKVGHFDPVTRVKLSADQLIPNFAMKEVVDNFLQENDW 249
I+ V DP TR L+ DQLIPN +KE +D +L+EN W
Sbjct: 30 TIERHLLSVDPTDPFTREPLTHDQLIPNLELKEKIDAWLEENRW 73
>gnl|CDD|222112 pfam13414, TPR_11, TPR repeat.
Length = 69
Score = 56.6 bits (137), Expect = 6e-11
Identities = 29/66 (43%), Positives = 38/66 (57%), Gaps = 1/66 (1%)
Query: 15 KELKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKL-KQYVHCCDDCRK 73
+ LK+ GN F L Y+EAI Y +A+ +P + N AL YLKL K Y +D K
Sbjct: 4 EALKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEK 63
Query: 74 ALELEP 79
ALEL+P
Sbjct: 64 ALELDP 69
Score = 40.8 bits (96), Expect = 3e-05
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 1/63 (1%)
Query: 51 FTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQFFLGQALHEIN-HYDEAVKHLQRAY 109
N KL Y + KALEL+P +A + L A ++ Y+EA++ L++A
Sbjct: 6 LKNLGNALFKLGDYDEAIEAYEKALELDPDNAEAYYNLALAYLKLGKDYEEALEDLEKAL 65
Query: 110 DLS 112
+L
Sbjct: 66 ELD 68
>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 = 56.9 bits (137), Expect = 3e-09
Identities = 28/86 (32%), Positives = 46/86 (53%), Gaps = 1/86 (1%)
Query: 17 LKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALE 76
LK++GN+ + + + +AI Y++AI P P Y++NRA C+ L + +D ALE
Sbjct: 130 LKEKGNKAYRNKDFNKAIKLYSKAIECKP-DPVYYSNRAACHNALGDWEKVVEDTTAALE 188
Query: 77 LEPSLVKAQFFLGQALHEINHYDEAV 102
L+P KA A + Y +A+
Sbjct: 189 LDPDYSKALNRRANAYDGLGKYADAL 214
Score = 35.7 bits (82), Expect = 0.021
Identities = 31/116 (26%), Positives = 57/116 (49%), Gaps = 12/116 (10%)
Query: 29 QYEEAINCYTRAI-IKNPVIPSY-----FTNRALCYLKLKQ-YVHCCDDCRKALELEPSL 81
+++EAI + AI ++ P Y N+AL + KQ ++ + C KAL ++P
Sbjct: 482 KFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPEC 541
Query: 82 VKAQFFLGQALHEINHYDEAVKHLQRAYDLSRE-----QNLNYGDDIACQLRIAKK 132
A + Q L + DEA+K +RA +L+R Q ++Y + Q+++ +
Sbjct: 542 DIAVATMAQLLLQQGDVDEALKLFERAAELARTEGELVQAISYAEATRTQIQVQED 597
Score = 30.0 bits (67), Expect = 1.3
Identities = 13/78 (16%), Positives = 35/78 (44%)
Query: 31 EEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQFFLGQ 90
++A + +A+ N P + +RA + ++ D +K+++L+P + + LG
Sbjct: 382 DKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGV 441
Query: 91 ALHEINHYDEAVKHLQRA 108
++ ++ +R
Sbjct: 442 TQYKEGSIASSMATFRRC 459
Score = 28.0 bits (62), Expect = 6.2
Identities = 24/111 (21%), Positives = 43/111 (38%), Gaps = 3/111 (2%)
Query: 7 FTTNNLSDKE---LKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQ 63
L +KE L G ++ EA+ +++I +P + + RA L+L
Sbjct: 321 LDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELDPRVTQSYIKRASMNLELGD 380
Query: 64 YVHCCDDCRKALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSRE 114
+D KAL+L + Q + +A K Q++ DL +
Sbjct: 381 PDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPD 431
>gnl|CDD|215568 PLN03088, PLN03088, SGT1, suppressor of G2 allele of SKP1;
Provisional.
Length = 356
Score = 54.0 bits (130), Expect = 1e-08
Identities = 33/134 (24%), Positives = 61/134 (45%), Gaps = 14/134 (10%)
Query: 15 KELKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKA 74
K+L+D+ F + A++ YT+AI +P + +RA +KL + D KA
Sbjct: 3 KDLEDKAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKA 62
Query: 75 LELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIAKKKR 134
+EL+PSL KA G A ++ Y A L++ L+ ++ +
Sbjct: 63 IELDPSLAKAYLRKGTACMKLEEYQTAKAALEKGASLAPGD--------------SRFTK 108
Query: 135 WAETEEKRIAQEIE 148
+ +++IA+E +
Sbjct: 109 LIKECDEKIAEEEK 122
>gnl|CDD|205602 pfam13424, TPR_12, Tetratricopeptide repeat.
Length = 78
Score = 42.4 bits (100), Expect = 1e-05
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 44 NPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELE-------PSLVKAQFFLGQALHEIN 96
+P + + N AL +L Y + KALEL P +A L + +
Sbjct: 1 HPDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLARLYLALG 60
Query: 97 HYDEAVKHLQRAYDLSRE 114
YDEA+++L++A L
Sbjct: 61 DYDEALEYLEKALALREA 78
Score = 26.6 bits (59), Expect = 4.5
Identities = 15/52 (28%), Positives = 26/52 (50%)
Query: 79 PSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIA 130
P L A L L + YDEA++ L++A +L+RE ++ + +A
Sbjct: 2 PDLAAALNNLALVLRRLGDYDEALELLEKALELARELGEDHPETARALNNLA 53
>gnl|CDD|221837 pfam12895, Apc3, Anaphase-promoting complex, cyclosome, subunit 3.
Apc3, otherwise known as Cdc27, is one of the subunits
of the anaphase-promoting complex or cyclosome. The
anaphase-promoting complex is a multiprotein subunit E3
ubiquitin ligase complex that controls segregation of
chromosomes and exit from mitosis in eukaryotes. The
protein members of this family contain TPR repeats just
as those of Apc7 do, and it appears that these TPR units
bind the C-termini of the APC co-activators CDH1 and
CDC20.
Length = 80
Score = 42.2 bits (100), Expect = 1e-05
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 3/81 (3%)
Query: 28 RQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQFF 87
YE AI + + P + A CY QY + RK L+L+ S ++
Sbjct: 3 GNYENAIFLAEKLLALTPSNEDAYL-LAQCYFLQGQYKRAYELLRK-LKLDNSS-GCRYL 59
Query: 88 LGQALHEINHYDEAVKHLQRA 108
L Q L ++ YDEA+ L++A
Sbjct: 60 LAQCLLKLGKYDEAIAVLEKA 80
Score = 29.9 bits (68), Expect = 0.29
Identities = 16/53 (30%), Positives = 21/53 (39%), Gaps = 6/53 (11%)
Query: 24 YFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALE 76
YF QY+ A + + N Y A C LKL +Y D+ LE
Sbjct: 32 YFLQGQYKRAYELLRKLKLDNSSGCRYLL--AQCLLKLGKY----DEAIAVLE 78
>gnl|CDD|128780 smart00504, Ubox, Modified RING finger domain. Modified RING
finger domain, without the full complement of
Zn2+-binding ligands. Probable involvement in
E2-dependent ubiquitination.
Length = 63
Score = 38.8 bits (91), Expect = 1e-04
Identities = 11/28 (39%), Positives = 16/28 (57%)
Query: 216 HFDPVTRVKLSADQLIPNFAMKEVVDNF 243
DPVT L+ + LIPN A+K + +
Sbjct: 36 GTDPVTGQPLTHEDLIPNLALKSAIQEW 63
>gnl|CDD|201277 pfam00515, TPR_1, Tetratricopeptide repeat.
Length = 34
Score = 32.8 bits (76), Expect = 0.008
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 51 FTNRALCYLKLKQYVHCCDDCRKALELEPS 80
N YLKL +Y + KALEL P+
Sbjct: 4 LYNLGNAYLKLGKYDEALEYYEKALELNPN 33
Score = 30.5 bits (70), Expect = 0.067
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 21 GNRYFGLRQYEEAINCYTRAIIKNP 45
GN Y L +Y+EA+ Y +A+ NP
Sbjct: 8 GNAYLKLGKYDEALEYYEKALELNP 32
Score = 27.0 bits (61), Expect = 1.1
Identities = 11/30 (36%), Positives = 20/30 (66%)
Query: 82 VKAQFFLGQALHEINHYDEAVKHLQRAYDL 111
KA + LG A ++ YDEA+++ ++A +L
Sbjct: 1 AKALYNLGNAYLKLGKYDEALEYYEKALEL 30
>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 = 32.8 bits (76), Expect = 0.010
Identities = 12/33 (36%), Positives = 15/33 (45%)
Query: 48 PSYFTNRALCYLKLKQYVHCCDDCRKALELEPS 80
N YLKL Y + KALEL+P+
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPN 33
Score = 29.0 bits (66), Expect = 0.19
Identities = 8/22 (36%), Positives = 13/22 (59%)
Query: 24 YFGLRQYEEAINCYTRAIIKNP 45
Y L Y+EA+ Y +A+ +P
Sbjct: 11 YLKLGDYDEALEYYEKALELDP 32
Score = 27.0 bits (61), Expect = 1.0
Identities = 10/33 (30%), Positives = 20/33 (60%)
Query: 82 VKAQFFLGQALHEINHYDEAVKHLQRAYDLSRE 114
+A + LG A ++ YDEA+++ ++A +L
Sbjct: 1 AEALYNLGNAYLKLGDYDEALEYYEKALELDPN 33
>gnl|CDD|223533 COG0457, NrfG, FOG: TPR repeat [General function prediction only].
Length = 291
Score = 35.6 bits (80), Expect = 0.016
Identities = 34/108 (31%), Positives = 52/108 (48%), Gaps = 1/108 (0%)
Query: 10 NNLSDKELKDEGNRYFGLRQYEEAINCYTRAIIKNP-VIPSYFTNRALCYLKLKQYVHCC 68
N + L G L +YEEA+ +A+ NP N L YLKL +Y
Sbjct: 163 LNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKYEEAL 222
Query: 69 DDCRKALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQN 116
+ KALEL+P +A + L L E+ Y+EA++ L++A +L +
Sbjct: 223 EYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPDLY 270
Score = 31.4 bits (69), Expect = 0.45
Identities = 31/127 (24%), Positives = 53/127 (41%), Gaps = 4/127 (3%)
Query: 10 NNLSDKELKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRAL-CYLKLKQYVHCC 68
+ L + G L +YEEA+ +A+ +P AL +L Y
Sbjct: 91 LPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDPDLAEALLALGALYELGDYEEAL 150
Query: 69 DDCRKALELEPS---LVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIAC 125
+ KALEL+P L +A LG L + Y+EA++ L++A L+ + + ++
Sbjct: 151 ELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGL 210
Query: 126 QLRIAKK 132
K
Sbjct: 211 LYLKLGK 217
Score = 28.7 bits (62), Expect = 3.3
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 1/93 (1%)
Query: 10 NNLSDKELKDEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCD 69
+ + L + G Y L +YEEA+ Y +A+ +P N AL L+L +Y +
Sbjct: 198 PDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALE 257
Query: 70 DCRKALELEPSLV-KAQFFLGQALHEINHYDEA 101
KALEL+P L L + ++A
Sbjct: 258 ALEKALELDPDLYNLGLALLLLLAEALELLEKA 290
>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 = 33.4 bits (77), Expect = 0.040
Identities = 16/54 (29%), Positives = 24/54 (44%), Gaps = 6/54 (11%)
Query: 27 LRQYEEAINCYTRAI---IKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALEL 77
L++YEEAI+ Y A +P P + A C L L + A+E+
Sbjct: 64 LKEYEEAIDAYALAAALDPDDP-RPYFHA--AECLLALGEPESALKALDLAIEI 114
>gnl|CDD|222123 pfam13432, TPR_16, Tetratricopeptide repeat.
Length = 65
Score = 31.9 bits (73), Expect = 0.044
Identities = 12/41 (29%), Positives = 15/41 (36%)
Query: 72 RKALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLS 112
AL P +A LG+AL EA L+ A
Sbjct: 21 EAALARYPLAAEALLLLGEALLRQGRLAEAAALLRAALAAD 61
Score = 30.0 bits (68), Expect = 0.19
Identities = 6/46 (13%), Positives = 13/46 (28%)
Query: 19 DEGNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQY 64
Y+EA+ A+ + P+ L+ +
Sbjct: 2 ALARAALRAGDYDEALAALEAALARYPLAAEALLLLGEALLRQGRL 47
>gnl|CDD|222842 PHA01972, PHA01972, structural protein.
Length = 828
Score = 34.5 bits (79), Expect = 0.050
Identities = 26/85 (30%), Positives = 43/85 (50%), Gaps = 7/85 (8%)
Query: 129 IAKKKRWAETEEKRIAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQEAV-M 187
I KKKR A IA++ E +N ++T A+K+ + ++ + +A +V
Sbjct: 70 IKKKKRVALA----IAKQAEATKKINEVLT--ADKDPAAALLGMLSRDPNEEAKFLSVEQ 123
Query: 188 RIEARRDRSMAELNDLFVAIDERRR 212
RI A RD S A+++D A+D R
Sbjct: 124 RINATRDVSKAKISDFMAALDPTTR 148
>gnl|CDD|205609 pfam13431, TPR_17, Tetratricopeptide repeat.
Length = 34
Score = 30.6 bits (70), Expect = 0.059
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 71 CRKALELEPSLVKAQFFLGQALHEINHYDEAVK 103
KALEL+P+ +A + L L + YDEA++
Sbjct: 2 YEKALELDPNNAEAYYNLALLLLNLGQYDEALQ 34
Score = 26.4 bits (59), Expect = 1.7
Identities = 10/29 (34%), Positives = 14/29 (48%)
Query: 36 CYTRAIIKNPVIPSYFTNRALCYLKLKQY 64
Y +A+ +P + N AL L L QY
Sbjct: 1 LYEKALELDPNNAEAYYNLALLLLNLGQY 29
>gnl|CDD|215621 PLN03188, PLN03188, kinesin-12 family protein; Provisional.
Length = 1320
Score = 34.1 bits (78), Expect = 0.066
Identities = 27/83 (32%), Positives = 42/83 (50%), Gaps = 6/83 (7%)
Query: 134 RWAETEEKRIAQEIELLTYL--NRLITEDAEKELGSIRRDAETKRLDGDAVQEAVMRIEA 191
RW E E K I+ EL T L +R + E + EL + +R AE + +A+Q A M A
Sbjct: 1055 RWTEAESKWISLAEELRTELDASRALAEKQKHELDTEKRCAEELK---EAMQMA-MEGHA 1110
Query: 192 RRDRSMAELNDLFVAIDERRRKV 214
R A+L + + + R R++
Sbjct: 1111 RMLEQYADLEEKHIQLLARHRRI 1133
>gnl|CDD|225400 COG2844, GlnD, UTP:GlnB (protein PII) uridylyltransferase
[Posttranslational modification, protein turnover,
chaperones].
Length = 867
Score = 33.5 bits (77), Expect = 0.093
Identities = 23/93 (24%), Positives = 42/93 (45%), Gaps = 8/93 (8%)
Query: 142 RIAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQEAVMRIEARRD----RSM 197
R+A+ + L NR++ + E+ + S+ R + + LD D E RIE R R
Sbjct: 298 RVAKRVSEL---NRILLQALEERILSLPRRVKKRPLDDD-FVERNGRIELRDPDLFERDP 353
Query: 198 AELNDLFVAIDERRRKVGHFDPVTRVKLSADQL 230
+ LF + + GH D + +++ + L
Sbjct: 354 EAILRLFAIMAQTGLITGHPDTLRQLRRALRLL 386
>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 = 29.8 bits (68), Expect = 0.12
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 15 KELKDEGNRYFGLRQYEEAINCYTRAIIKNP 45
+ L + G Y+ L YEEA+ Y +A+ +P
Sbjct: 2 EALYNLGLAYYKLGDYEEALEAYEKALELDP 32
Score = 28.6 bits (65), Expect = 0.29
Identities = 9/33 (27%), Positives = 20/33 (60%)
Query: 82 VKAQFFLGQALHEINHYDEAVKHLQRAYDLSRE 114
+A + LG A +++ Y+EA++ ++A +L
Sbjct: 1 AEALYNLGLAYYKLGDYEEALEAYEKALELDPN 33
Score = 27.5 bits (62), Expect = 0.67
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 53 NRALCYLKLKQYVHCCDDCRKALELEP 79
N L Y KL Y + KALEL+P
Sbjct: 6 NLGLAYYKLGDYEEALEAYEKALELDP 32
>gnl|CDD|235334 PRK05035, PRK05035, electron transport complex protein RnfC;
Provisional.
Length = 695
Score = 32.2 bits (74), Expect = 0.23
Identities = 21/69 (30%), Positives = 31/69 (44%), Gaps = 6/69 (8%)
Query: 128 RIAKKKRWAETEEKRIAQE----IELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQ 183
R AK + A +EK+ A+E E RL E A +E + D DAV
Sbjct: 432 RQAKAEIRAIEQEKKKAEEAKARFEARQA--RLEREKAAREARHKKAAEARAAKDKDAVA 489
Query: 184 EAVMRIEAR 192
A+ R++A+
Sbjct: 490 AALARVKAK 498
>gnl|CDD|226687 COG4235, COG4235, Cytochrome c biogenesis factor [Posttranslational
modification, protein turnover, chaperones].
Length = 287
Score = 31.6 bits (72), Expect = 0.31
Identities = 15/40 (37%), Positives = 20/40 (50%)
Query: 72 RKALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDL 111
R+AL L+P+ ++A L A E Y EA Q DL
Sbjct: 217 RQALALDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL 256
>gnl|CDD|132364 TIGR03321, alt_F1F0_F0_B, alternate F1F0 ATPase, F0 subunit B. A
small number of taxonomically diverse prokaryotic
species, including Methanosarcina barkeri, have what
appears to be a second ATP synthase, in addition to the
normal F1F0 ATPase in bacteria and A1A0 ATPase in
archaea. These enzymes use ion gradients to synthesize
ATP, CC and in principle may run in either direction.
This model represents the F0 subunit B of this apparent
second ATP synthase.
Length = 246
Score = 31.2 bits (71), Expect = 0.37
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 2/88 (2%)
Query: 128 RIAKKKRWAETEEKRIAQEIELLTYLNRLITEDAEKELGSIRRDA--ETKRLDGDAVQEA 185
+IA + A+T+++ QE N + + E L + +A E +RL +A +EA
Sbjct: 40 KIAGELADADTKKREAEQERREYEEKNEELDQQREVLLTKAKEEAQAERQRLLDEAREEA 99
Query: 186 VMRIEARRDRSMAELNDLFVAIDERRRK 213
E ++ E L + R
Sbjct: 100 DEIREKWQEALRREQAALSDELRRRTGA 127
>gnl|CDD|205362 pfam13181, TPR_8, Tetratricopeptide repeat.
Length = 34
Score = 28.2 bits (64), Expect = 0.42
Identities = 9/34 (26%), Positives = 19/34 (55%)
Query: 82 VKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQ 115
+A + LGQ ++ Y+EA ++ ++A +L
Sbjct: 1 ARAYYLLGQIYLQLGDYEEAKEYYEKALELDPNN 34
>gnl|CDD|236983 PRK11788, PRK11788, tetratricopeptide repeat protein; Provisional.
Length = 389
Score = 31.3 bits (72), Expect = 0.45
Identities = 22/90 (24%), Positives = 36/90 (40%), Gaps = 13/90 (14%)
Query: 72 RKALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIAK 131
+KAL +P V+A LG Y A++ L+R EQ+ Y ++ +L
Sbjct: 204 KKALAADPQCVRASILLGDLALAQGDYAAAIEALERV----EEQDPEYLSEVLPKLMEC- 258
Query: 132 KKRWAETEEKRIAQEIELLTYLNRLITEDA 161
+ + E E L +L R + E
Sbjct: 259 --------YQALGDEAEGLEFLRRALEEYP 280
>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 = 31.6 bits (72), Expect = 0.46
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 72 RKALELEPSLVKAQFFLGQALHEINHYDEAVKHL 105
RKA+ L P+ + L L E ++EA KH
Sbjct: 217 RKAIALRPNNIAVLLALATILIEAGEFEEAEKHA 250
Score = 30.4 bits (69), Expect = 0.91
Identities = 27/99 (27%), Positives = 43/99 (43%), Gaps = 11/99 (11%)
Query: 21 GNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLK-----QYVHCCDDCRKAL 75
Y + Y++AI Y + K P N A YL+LK +Y +AL
Sbjct: 777 AELYLAQKDYDKAIKHYQTVVKKAPDNAVVLNNLAWLYLELKDPRALEYA------ERAL 830
Query: 76 ELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSRE 114
+L P++ LG L E D A+ L++A +++ E
Sbjct: 831 KLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE 869
Score = 29.7 bits (67), Expect = 1.6
Identities = 22/90 (24%), Positives = 34/90 (37%), Gaps = 10/90 (11%)
Query: 27 LRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLV---- 82
L + +EAI + A+ +P P+ + YL L + + KA EL+P
Sbjct: 342 LGRVDEAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATELDPENAAART 401
Query: 83 -KAQFFLGQALHEINHYDEAVKHLQRAYDL 111
L Q EA+ L+ A L
Sbjct: 402 QLGISKLSQGDPS-----EAIADLETAAQL 426
Score = 29.7 bits (67), Expect = 1.7
Identities = 15/80 (18%), Positives = 30/80 (37%)
Query: 29 QYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQFFL 88
E A+ Y +AI P + A ++ ++ L+ P+ A +
Sbjct: 208 NIELALAAYRKAIALRPNNIAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLK 267
Query: 89 GQALHEINHYDEAVKHLQRA 108
+ +Y++A + LQ A
Sbjct: 268 ALVDFQKKNYEDARETLQDA 287
Score = 29.7 bits (67), Expect = 1.9
Identities = 19/87 (21%), Positives = 32/87 (36%)
Query: 21 GNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPS 80
G +A++ + + + P A Y +K Y ++ALEL+P
Sbjct: 608 GRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELKPD 667
Query: 81 LVKAQFFLGQALHEINHYDEAVKHLQR 107
+AQ L Q L + A K +
Sbjct: 668 NTEAQIGLAQLLLAAKRTESAKKIAKS 694
Score = 29.3 bits (66), Expect = 2.3
Identities = 13/38 (34%), Positives = 22/38 (57%)
Query: 74 ALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDL 111
AL+ +P+ +A+F LG+ + Y A K L++A L
Sbjct: 48 ALQKDPNDAEARFLLGKIYLALGDYAAAEKELRKALSL 85
Score = 28.9 bits (65), Expect = 3.1
Identities = 16/68 (23%), Positives = 25/68 (36%)
Query: 21 GNRYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPS 80
G Y L +E+A +A +P + T + L D A +L+P
Sbjct: 370 GEAYLALGDFEKAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPE 429
Query: 81 LVKAQFFL 88
L +A L
Sbjct: 430 LGRADLLL 437
>gnl|CDD|217365 pfam03097, BRO1, BRO1-like domain. This domain is found in a
number proteins including Rhophilin and BRO1. It is
known to have a role in endosomal targeting. ESCRT-III
subunit Snf7 binds to a conserved hydrophobic patch in
the BRO1 domain that is required for protein complex
formation and for the protein-sorting function of BRO1.
Length = 374
Score = 31.1 bits (71), Expect = 0.58
Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 25/86 (29%)
Query: 29 QYEEAINCYTRAIIKNPV---IPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQ 85
YEEA+ A+ ++PV IP + +++LKQ+ KAL A
Sbjct: 205 LYEEAL----EALQESPVKTGIPKEWIK----HVQLKQHYF------KAL--------AH 242
Query: 86 FFLGQALHEINHYDEAVKHLQRAYDL 111
++ AL E Y EA+ LQ+A
Sbjct: 243 YYHALALEEKKKYGEAIARLQKALSA 268
>gnl|CDD|225504 COG2956, COG2956, Predicted N-acetylglucosaminyl transferase
[Carbohydrate transport and metabolism].
Length = 389
Score = 30.8 bits (70), Expect = 0.59
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 4/58 (6%)
Query: 73 KALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIA 130
KAL+ + V+A LG+ Y +AV+ L+R EQN Y ++ L
Sbjct: 205 KALQADKKCVRASIILGRVELAKGDYQKAVEALERV----LEQNPEYLSEVLEMLYEC 258
>gnl|CDD|227122 COG4783, COG4783, Putative Zn-dependent protease, contains TPR
repeats [General function prediction only].
Length = 484
Score = 30.4 bits (69), Expect = 0.96
Identities = 23/85 (27%), Positives = 35/85 (41%)
Query: 24 YFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVK 83
+ QY+EA+ I P P Y L+ + + +KAL L+P+
Sbjct: 316 TYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPL 375
Query: 84 AQFFLGQALHEINHYDEAVKHLQRA 108
Q L QAL + EA++ L R
Sbjct: 376 LQLNLAQALLKGGKPQEAIRILNRY 400
>gnl|CDD|233757 TIGR02168, SMC_prok_B, chromosome segregation protein SMC, common
bacterial type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. This family
represents the SMC protein of most bacteria. The smc
gene is often associated with scpB (TIGR00281) and scpA
genes, where scp stands for segregation and condensation
protein. SMC was shown (in Caulobacter crescentus) to be
induced early in S phase but present and bound to DNA
throughout the cell cycle [Cellular processes, Cell
division, DNA metabolism, Chromosome-associated
proteins].
Length = 1179
Score = 30.0 bits (68), Expect = 1.6
Identities = 31/142 (21%), Positives = 63/142 (44%), Gaps = 2/142 (1%)
Query: 73 KALELEPSLVKAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIA-CQLRIAK 131
+ E E + + + + Q E+ EA+ L+ L E+ N + + + RIA
Sbjct: 776 ELAEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAA 835
Query: 132 KKRWAETEEKRIAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQEAVMRIEA 191
+R E E++I + E + L I E+ E+ + + + E + +++EA+ + +
Sbjct: 836 TERRLEDLEEQIEELSEDIESLAAEI-EELEELIEELESELEALLNERASLEEALALLRS 894
Query: 192 RRDRSMAELNDLFVAIDERRRK 213
+ EL +L E RR+
Sbjct: 895 ELEELSEELRELESKRSELRRE 916
>gnl|CDD|233758 TIGR02169, SMC_prok_A, chromosome segregation protein SMC,
primarily archaeal type. SMC (structural maintenance of
chromosomes) proteins bind DNA and act in organizing and
segregating chromosomes for partition. SMC proteins are
found in bacteria, archaea, and eukaryotes. It is found
in a single copy and is homodimeric in prokaryotes, but
six paralogs (excluded from this family) are found in
eukarotes, where SMC proteins are heterodimeric. This
family represents the SMC protein of archaea and a few
bacteria (Aquifex, Synechocystis, etc); the SMC of other
bacteria is described by TIGR02168. The N- and
C-terminal domains of this protein are well conserved,
but the central hinge region is skewed in composition
and highly divergent [Cellular processes, Cell division,
DNA metabolism, Chromosome-associated proteins].
Length = 1164
Score = 29.3 bits (66), Expect = 2.1
Identities = 19/90 (21%), Positives = 39/90 (43%), Gaps = 8/90 (8%)
Query: 125 CQLRIAKKKRWAETEEKRIAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQE 184
+ IA+K+R E E+R+A+ + + E+ + R+ E +R D + E
Sbjct: 306 LERSIAEKERELEDAEERLAKLEAEI--------DKLLAEIEELEREIEEERKRRDKLTE 357
Query: 185 AVMRIEARRDRSMAELNDLFVAIDERRRKV 214
++ + AEL ++ E R ++
Sbjct: 358 EYAELKEELEDLRAELEEVDKEFAETRDEL 387
>gnl|CDD|185761 cd09034, BRO1_Alix_like, Protein-interacting Bro1-like domain of
mammalian Alix and related domains. This superfamily
includes the Bro1-like domains of mammalian Alix
(apoptosis-linked gene-2 interacting protein X),
His-Domain type N23 protein tyrosine phosphatase
(HD-PTP, also known as PTPN23), RhoA-binding proteins
Rhophilin-1 and Rhophilin-2, Brox, Bro1 and Rim20 (also
known as PalA) from Saccharomyces cerevisiae, and
related domains. Alix, HD-PTP, Brox, Bro1 and Rim20
interact with the ESCRT (Endosomal Sorting Complexes
Required for Transport) system. Alix, also known as
apoptosis-linked gene-2 interacting protein 1 (AIP1),
participates in membrane remodeling processes during the
budding of enveloped viruses, vesicle budding inside
late endosomal multivesicular bodies (MVBs), and the
abscission reactions of mammalian cell division. It also
functions in apoptosis. HD-PTP functions in cell
migration and endosomal trafficking, Bro1 in endosomal
trafficking, and Rim20 in the response to the external
pH via the Rim101 pathway. Bro1-like domains are
boomerang-shaped, and part of the domain is a
tetratricopeptide repeat (TPR)-like structure. Bro1-like
domains bind components of the ESCRT-III complex: CHMP4
(in the case of Alix, HD-PTP, and Brox) and Snf7 (in the
case of yeast Bro1, and Rim20). The single domain
protein human Brox, and the isolated Bro1-like domains
of Alix, HD-PTP and Rhophilin can bind human
immunodeficiency virus type 1 (HIV-1) nucleocapsid.
Alix, HD-PTP, Bro1, and Rim20 also have a V-shaped (V)
domain, which in the case of Alix, has been shown to be
a dimerization domain and to contain a binding site for
the retroviral late assembly (L) domain YPXnL motif,
which is partially conserved in this superfamily. Alix,
HD-PTP and Bro1 also have a proline-rich region (PRR);
the Alix PRR binds multiple partners. Rhophilin-1, and
-2, in addition to this Bro1-like domain, have an
N-terminal Rho-binding domain and a C-terminal PDZ
(PS.D.-95, Disc-large, ZO-1) domain. HD-PTP is encoded
by the PTPN23 gene, a tumor suppressor gene candidate
frequently absent in human kidney, breast, lung, and
cervical tumors. This protein has a C-terminal,
catalytically inactive tyrosine phosphatase domain.
Length = 345
Score = 28.9 bits (65), Expect = 2.9
Identities = 23/83 (27%), Positives = 34/83 (40%), Gaps = 17/83 (20%)
Query: 29 QYEEAINCYTRAIIKNPVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLVKAQFFL 88
YEEA+ C + + + L +LK K+ + KAL A ++
Sbjct: 215 YYEEALKCLSG---VDLETIKNIPKKWLLFLKWKKCIF------KAL--------AYYYH 257
Query: 89 GQALHEINHYDEAVKHLQRAYDL 111
G L E N EA+ LQ A +L
Sbjct: 258 GLKLDEANKIGEAIARLQAALEL 280
>gnl|CDD|173680 cd05589, STKc_PKN, Catalytic domain of the Protein Serine/Threonine
Kinase, Protein Kinase N. Serine/Threonine Kinases
(STKs), Protein Kinase N (PKN) subfamily, catalytic (c)
domain. STKs catalyze the transfer of the
gamma-phosphoryl group from ATP to serine/threonine
residues on protein substrates. The PKN subfamily is
part of a larger superfamily that includes the catalytic
domains of other protein STKs, protein tyrosine kinases,
RIO kinases, aminoglycoside phosphotransferase, choline
kinase, and phosphoinositide 3-kinase. PKN has a
C-terminal catalytic domain that is highly homologous to
PKCs. Its unique N-terminal regulatory region contains
antiparallel coiled-coil (ACC) domains. In mammals,
there are three PKN isoforms from different genes
(designated PKN-alpha, beta, and gamma), which show
different enzymatic properties, tissue distribution, and
varied functions. PKN can be activated by the small
GTPase Rho, and by fatty acids such as arachidonic and
linoleic acids. It is involved in many biological
processes including cytokeletal regulation, cell
adhesion, vesicle transport, glucose transport,
regulation of meiotic maturation and embryonic cell
cycles, signaling to the nucleus, and tumorigenesis.
Length = 324
Score = 28.5 bits (64), Expect = 3.1
Identities = 10/26 (38%), Positives = 17/26 (65%)
Query: 148 ELLTYLNRLITEDAEKELGSIRRDAE 173
E ++ + RL+ + E+ LGS +DAE
Sbjct: 227 EAISIMRRLLRRNPERRLGSGEKDAE 252
>gnl|CDD|237674 PRK14326, PRK14326, (dimethylallyl)adenosine tRNA
methylthiotransferase; Provisional.
Length = 502
Score = 28.9 bits (65), Expect = 3.3
Identities = 17/59 (28%), Positives = 25/59 (42%), Gaps = 17/59 (28%)
Query: 123 IACQLRIAKKKRWAETEEKRIAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDA 181
+A Q RI+ E K + + +ELL + G R+DA T R+ G A
Sbjct: 374 VALQERIS----LEENR-KLVGRTVELL------VAT------GEGRKDAATHRMSGRA 415
>gnl|CDD|227000 COG4653, COG4653, Predicted phage phi-C31 gp36 major capsid-like
protein [General function prediction only].
Length = 422
Score = 28.3 bits (63), Expect = 5.1
Identities = 9/38 (23%), Positives = 15/38 (39%), Gaps = 1/38 (2%)
Query: 159 EDAEKELGSIRRDAE-TKRLDGDAVQEAVMRIEARRDR 195
E+AE+E + D E DA+ + + A
Sbjct: 38 EEAEEENRRLLADIERVGGDKLDAIPGNLDKDTAFLAL 75
>gnl|CDD|181182 PRK07960, fliI, flagellum-specific ATP synthase; Validated.
Length = 455
Score = 27.8 bits (62), Expect = 6.0
Identities = 10/34 (29%), Positives = 20/34 (58%), Gaps = 3/34 (8%)
Query: 73 KALELEPSLVKAQFFLGQALHEINHYDEAVKHLQ 106
KA+ L P L + FL Q + E ++++++ L+
Sbjct: 420 KAIALWPQL---EAFLQQGIFERADWEDSLQALE 450
>gnl|CDD|224114 COG1193, COG1193, Mismatch repair ATPase (MutS family) [DNA
replication, recombination, and repair].
Length = 753
Score = 27.7 bits (62), Expect = 6.5
Identities = 21/95 (22%), Positives = 37/95 (38%), Gaps = 10/95 (10%)
Query: 92 LHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIAKKKRWAETEEKRIAQEIELLT 151
L +N EA+ L++ L E+ L D + + + + E ++ +A + L+
Sbjct: 63 LGGLNDVSEALGRLEKGGRLHVEELLEISDFLRGFRALKRAIKKLERIKRTLALALIELS 122
Query: 152 YLNR----------LITEDAEKELGSIRRDAETKR 176
L LI + A EL +IRR
Sbjct: 123 DLELEINIPIDDDGLIKDRASFELDAIRRQLRDLE 157
>gnl|CDD|188300 TIGR03248, galactar-dH20, galactarate dehydratase. Galactarate
dehydratase converts D-galactarate to
5-dehydro-4-deoxyglucarate which is subsequently acted
on by GarL, tartronate semialdehyde reductase and
glycerate kinase (, GenProp0714).
Length = 507
Score = 27.8 bits (62), Expect = 6.7
Identities = 11/37 (29%), Positives = 15/37 (40%)
Query: 217 FDPVTRVKLSADQLIPNFAMKEVVDNFLQENDWAYEY 253
F VT V+ + L P EV ++E W Y
Sbjct: 303 FSEVTEVRDAIHLLTPRAETAEVAKALIREMKWYDRY 339
>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 = 27.3 bits (61), Expect = 6.8
Identities = 22/110 (20%), Positives = 44/110 (40%), Gaps = 6/110 (5%)
Query: 25 FGLRQYEEAINCYTRAIIKN--PVIPSYFTNRALCYLKLKQYVHCCDDCRKALELEPSLV 82
+YE+A+ + +AI P N LC LK + +AL+++P
Sbjct: 110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRP 169
Query: 83 KAQFFLGQALHEINHYDEAVKHLQRAYDLSREQNLNYGDDIACQLRIAKK 132
++ L + + Y +A +L+R + + + +RIA+
Sbjct: 170 ESLLELAELYYLRGQYKDARAYLERYQQTYNQT----AESLWLGIRIARA 215
>gnl|CDD|211913 TIGR04190, B12_SAM_Ta0216, B12-binding domain/radical SAM domain
protein, Ta0216 family. Members of this family are
enzymes with an N-terminal B12-binding domain and
central radical SAM domain. Families TIGR03975,
TIGR04013 and TIGR04014 exhibit a similar architecture,
which may be associated with lipid metabolism.
Length = 553
Score = 27.8 bits (62), Expect = 7.2
Identities = 13/39 (33%), Positives = 16/39 (41%)
Query: 23 RYFGLRQYEEAINCYTRAIIKNPVIPSYFTNRALCYLKL 61
R G + YEE I N +I +FT LKL
Sbjct: 281 RMAGPKYYEEFFKLLKERDISNELIFEFFTPPPKEVLKL 319
>gnl|CDD|221432 pfam12128, DUF3584, Protein of unknown function (DUF3584). This
protein is found in bacteria and eukaryotes. Proteins in
this family are typically between 943 to 1234 amino
acids in length. This family contains a P-loop motif
suggesting it is a nucleotide binding protein. It may be
involved in replication.
Length = 1198
Score = 27.7 bits (62), Expect = 7.3
Identities = 28/130 (21%), Positives = 51/130 (39%), Gaps = 15/130 (11%)
Query: 88 LGQALHEINHYDEAVKHLQRAY-----DLSREQNLNYGDDIACQLRIAKKKRWAETEEKR 142
L QA E+ A + A DL R QN +L IA++K+ AET+ ++
Sbjct: 630 LVQANAELEEQKRAEAEARTALKQARLDLQRLQNEQQSLKDKLELAIAERKQQAETQLRQ 689
Query: 143 IAQEIELLTYLNRLITEDAEKELGSIRRDAETKRLDGDAVQEAVMRIEARRDRSMAELND 202
+ +++ L + + L R+ T+R +E D +A+L+
Sbjct: 690 LDAQLKQL----LEQQQAFLEALKDDFRELRTER------LAKWQVVEGELDNQLAQLSA 739
Query: 203 LFVAIDERRR 212
A + +
Sbjct: 740 AIEAARTQAK 749
>gnl|CDD|221958 pfam13176, TPR_7, Tetratricopeptide repeat.
Length = 36
Score = 24.5 bits (54), Expect = 8.0
Identities = 7/29 (24%), Positives = 17/29 (58%)
Query: 87 FLGQALHEINHYDEAVKHLQRAYDLSREQ 115
LG+ ++ Y++A+ +RA L+++
Sbjct: 4 NLGRLYRKLGDYEKAISLYERALALAKDP 32
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
0.320 0.135 0.392
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: 13,247,588
Number of extensions: 1308964
Number of successful extensions: 1551
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1522
Number of HSP's successfully gapped: 153
Length of query: 253
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 158
Effective length of database: 6,723,972
Effective search space: 1062387576
Effective search space used: 1062387576
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 58 (26.1 bits)