RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy177
(608 letters)
>gnl|CDD|219275 pfam07034, ORC3_N, Origin recognition complex (ORC) subunit 3
N-terminus. This family represents the N-terminus
(approximately 300 residues) of subunit 3 of the
eukaryotic origin recognition complex (ORC). Origin
recognition complex (ORC) is composed of six subunits
that are essential for cell viability. They collectively
bind to the autonomously replicating sequence (ARS) in a
sequence-specific manner and lead to the chromatin
loading of other replication factors that are essential
for initiation of DNA replication.
Length = 313
Score = 135 bits (342), Expect = 2e-35
Identities = 49/133 (36%), Positives = 83/133 (62%)
Query: 146 KDKLIIALQDYESFPCSILNEFLLILHEYLVTLPFILILGVSTSPSIIHSTLNYDVISTM 205
+++ L+D+ESF +L +F+LIL EY+ +LPF+L+ G++TSPS IH L + V S +
Sbjct: 181 SPPVVVILKDFESFSPKVLQDFILILSEYVSSLPFVLVFGIATSPSAIHKLLPHHVSSLL 240
Query: 206 KIHTFYNQPSIESLNLITDNIILNNKFPLILHHTILEFLIDNFLFYDFSLHTFMKGVKIC 265
+ F + + LN + D ++L FP L + + L D FL++DFS+ F+KG+K+
Sbjct: 241 CLELFQSLSPTQHLNAVLDKVLLTPCFPFKLSGKVFQVLTDIFLYHDFSVQNFIKGLKLA 300
Query: 266 ILKHISMNNINAL 278
+L+H ++AL
Sbjct: 301 LLEHFFTQPLSAL 313
>gnl|CDD|222417 pfam13851, GAS, Growth-arrest specific micro-tubule binding. This
family is the highly conserved central region of a
number of metazoan proteins referred to as growth-arrest
proteins. In mouse, Gas8 is predominantly a testicular
protein, whose expression is developmentally regulated
during puberty and spermatogenesis. In humans, it is
absent in infertile males who lack the ability to
generate gametes. The localisation of Gas8 in the
motility apparatus of post-meiotic gametocytes and
mature spermatozoa, together with the detection of Gas8
also in cilia at the apical surfaces of epithelial cells
lining the pulmonary bronchi and Fallopian tubes
suggests that the Gas8 protein may have a role in the
functioning of motile cellular appendages. Gas8 is a
microtubule-binding protein localised to regions of
dynein regulation in mammalian cells.
Length = 201
Score = 37.2 bits (87), Expect = 0.011
Identities = 23/109 (21%), Positives = 48/109 (44%), Gaps = 22/109 (20%)
Query: 416 ILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQ 475
+ LK EEV++L++++K+ + K K + L K+R + + L+++K
Sbjct: 57 NKRLVEPLKKAEEEVEELRKKLKDYE-----KDKQSLKNL----KARLKELEKELKNLKW 107
Query: 476 DKLQFEFDIKREKFSIKQDKLQFEFDIKREKFVQ----YLIKNLFRNYF 520
E ++ ++F +K++ E D +KF K +N
Sbjct: 108 -----ESEVLEQRF----EKVERERDELYDKFEAAIQDVQQKTGLKNLL 147
>gnl|CDD|220369 pfam09731, Mitofilin, Mitochondrial inner membrane protein.
Mitofilin controls mitochondrial cristae morphology.
Mitofilin is enriched in the narrow space between the
inner boundary and the outer membranes, where it forms a
homotypic interaction and assembles into a large
multimeric protein complex. The first 78 amino acids
contain a typical amino-terminal-cleavable mitochondrial
presequence rich in positive-charged and hydroxylated
residues and a membrane anchor domain. In addition, it
has three centrally located coiled coil domains.
Length = 493
Score = 35.0 bits (81), Expect = 0.13
Identities = 26/131 (19%), Positives = 53/131 (40%), Gaps = 14/131 (10%)
Query: 386 SKQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEVQ 445
QEL+ LI I + L + ++S+I + EE+ +L +++ E +
Sbjct: 137 VVQELVSIFNDLIDSIKEDNLKDDLESLIA---------SAKEELDQLSKKLAELKAEEE 187
Query: 446 IKHKNDISKLNLTPKS--RAQLKQNLLESIKQDKLQFEFDIKREKFSI---KQDKLQFEF 500
+ + + + S +L L + Q + +REK + ++KL+ E
Sbjct: 188 EELERALKEKREELLSKLEEELLARLESKEAALEKQLRLEFEREKEELRKKYEEKLRQEL 247
Query: 501 DIKREKFVQYL 511
+ + E Q L
Sbjct: 248 ERQAEAHEQKL 258
Score = 29.2 bits (66), Expect = 7.8
Identities = 30/179 (16%), Positives = 79/179 (44%), Gaps = 22/179 (12%)
Query: 300 IKELDSVAKLSIKKLDSNGVVKYSIELF-EFITNMYSSLQCLFALVYDLPNNPLGKQLRD 358
++ L+ + + +K+ S+ VV+ + +F + I ++ + D + + +
Sbjct: 118 VEALEELLEELLKETASDPVVQELVSIFNDLIDSIKEDN------LKDDLESLIASAKEE 171
Query: 359 IYCIVLSEKVFVESSTFKQCLQLIQFISKQELLEKC-LQLIQFISKQELLEKVKSIILIL 417
+ LS+K+ + ++ L+ ++ELL K +L+ + +E + + +
Sbjct: 172 L--DQLSKKLAELKAEEEEELERALKEKREELLSKLEEELLARLESKEAALEKQ----LR 225
Query: 418 NQNKNLKTVLEEV--QKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIK 474
+ + K L + +KL+QE++ + K KN+++ +L++ + IK
Sbjct: 226 LEFEREKEELRKKYEEKLRQELERQAEAHEQKLKNELALQ------AIELQREFNKEIK 278
>gnl|CDD|217803 pfam03938, OmpH, Outer membrane protein (OmpH-like). This family
includes outer membrane proteins such as OmpH among
others. Skp (OmpH) has been characterized as a molecular
chaperone that interacts with unfolded proteins as they
emerge in the periplasm from the Sec translocation
machinery.
Length = 157
Score = 32.2 bits (74), Expect = 0.38
Identities = 24/105 (22%), Positives = 49/105 (46%), Gaps = 2/105 (1%)
Query: 410 VKSIILILNQNKNLKTVLE-EVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQN 468
V+ ++ K + LE E +KLQ E++ + E+Q + + + + + KQ
Sbjct: 23 VQKVLSESPAGKAAQKQLEKEFKKLQAELQKKEKELQKEEQKLQKQAATLSEEARKAKQQ 82
Query: 469 LLESIKQDKLQFEFDIKREKFSIKQDKLQFEFDIKREKFVQYLIK 513
L+ KQ +LQ + +++ KQ +L K +K ++ + K
Sbjct: 83 ELQQ-KQQELQQKQQAAQQELQQKQQELLQPIYDKIDKAIKEVAK 126
>gnl|CDD|219791 pfam08317, Spc7, Spc7 kinetochore protein. This domain is found in
cell division proteins which are required for
kinetochore-spindle association.
Length = 321
Score = 33.1 bits (76), Expect = 0.41
Identities = 28/132 (21%), Positives = 60/132 (45%), Gaps = 11/132 (8%)
Query: 389 ELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLE-----EVQKLQQEIKNADTE 443
ELL K L LI I K +L +K++++ + + L L E++K +QE+++ +
Sbjct: 164 ELLNKDLNLINSI-KPKLRKKLQALKEEIASLRQLADELNLCDPLELEKARQELRSLSVK 222
Query: 444 VQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREKFSIKQDKLQFEFDIK 503
+ K K + +L + Q +E++ K + +I + ++ + +I
Sbjct: 223 ISEKRK-QLEEL----QQELQELTIAIEALTNKKSELLEEIAEAEKIREECRGWSAKEIS 277
Query: 504 REKFVQYLIKNL 515
+ K L++ L
Sbjct: 278 KLKAKVSLLQKL 289
>gnl|CDD|152940 pfam12506, DUF3713, Protein of unknown function (DUF3713). This
family of proteins is found in bacteria. Proteins in
this family are typically between 92 and 1225 amino
acids in length. There is a single completely conserved
residue S that may be functionally important.
Length = 116
Score = 30.9 bits (70), Expect = 0.69
Identities = 16/55 (29%), Positives = 24/55 (43%), Gaps = 4/55 (7%)
Query: 423 LKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDK 477
LKT +V KL+ + +T+ K + KL +T Q Q +L K D
Sbjct: 31 LKTKDADVDKLKDKKTKVETKA----KELVEKLKVTTAPSPQYSQIILVKSKNDN 81
>gnl|CDD|237177 PRK12704, PRK12704, phosphodiesterase; Provisional.
Length = 520
Score = 32.1 bits (74), Expect = 0.96
Identities = 22/103 (21%), Positives = 49/103 (47%), Gaps = 26/103 (25%)
Query: 380 QLIQFISKQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKN 439
+L+Q K+E L++ K ELLEK + + L+ +E+++ QQE++
Sbjct: 90 RLLQ---KEENLDR---------KLELLEK---------REEELEKKEKELEQKQQELEK 128
Query: 440 ADTEVQIKHKNDISKL----NLTP-KSRAQLKQNLLESIKQDK 477
+ E++ + + +L LT +++ L + + E + +
Sbjct: 129 KEEELEELIEEQLQELERISGLTAEEAKEILLEKVEEEARHEA 171
>gnl|CDD|237258 PRK12903, secA, preprotein translocase subunit SecA; Reviewed.
Length = 925
Score = 31.9 bits (73), Expect = 1.0
Identities = 45/295 (15%), Positives = 93/295 (31%), Gaps = 38/295 (12%)
Query: 223 TDNIILNNKFPLILHHTILEFLIDNFLF---YDFSLHTFMKGVKICILKHISMNNINALC 279
IIL N I + ++EFL DN L + FS F K + +++ +N
Sbjct: 636 NSFIILKNN--TINYKELVEFLNDNLLRITHFKFSEKDFENYHKEELAQYLI-EALNE-I 691
Query: 280 YNIMNQTLTKQMINANMLNE-----IKELDSVAKLSIKKLD----SNGVVKYS------- 323
Y Q + ++ + LD + I +D +V+YS
Sbjct: 692 YFKKRQVILDKIALNTFFESERYIILSALDKYWQNHIDTMDKLRSGVNLVQYSQKNPYQV 751
Query: 324 -----IELFEFITNMYSSLQCLFALVYDLPNNPLG-KQLRDIYCIVLSEKVFVESSTFKQ 377
+ F + + + +L NNP K L + + ++
Sbjct: 752 YTEEGTKKFNILLQ-EIAYDVIVSLF----NNPNAEKILIITEILSDGINNSDINDRPQE 806
Query: 378 CLQLIQFISKQELLEKCLQLIQFISKQE----LLEKVKSIILILNQNKNLKTVLEEVQKL 433
+ I ++ L +Q + + + E + E+ K++ + + EE +
Sbjct: 807 LIDQIIESEEERLKALRIQREEMLMRPEELELINEEQKNLKQEIKLELSEIQEAEEEIQN 866
Query: 434 QQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREK 488
E KN E + K + + + + + + +
Sbjct: 867 INENKNEFVEFKNDPKKLNKLIIAKDVLIKLVISSDEIKQDEKTTKKKKKDLEKT 921
>gnl|CDD|218681 pfam05667, DUF812, Protein of unknown function (DUF812). This
family consists of several eukaryotic proteins of
unknown function.
Length = 536
Score = 31.6 bits (72), Expect = 1.4
Identities = 25/95 (26%), Positives = 48/95 (50%), Gaps = 11/95 (11%)
Query: 406 LLEKVKSI-ILILNQNKNLKTVLEEVQKLQQEIKNADTEVQIK---HKNDISKLNLTPK- 460
L+++ +S+ N+ + L+E++KL+ +I+ ++E+Q K +K + + PK
Sbjct: 366 LIDEYRSLKEKNRNKEDETQRQLDEIKKLRNKIEELESELQTKEQLYKQLLDEYENAPKS 425
Query: 461 -SRAQLKQNLLESIKQDKLQFEFDIKREKFSIKQD 494
SR+ + +LE IK K Q K + I D
Sbjct: 426 VSRSAYTRRILEIIKNIKKQ-----KEDIDKILSD 455
>gnl|CDD|221450 pfam12166, DUF3595, Protein of unknown function (DUF3595). This
family of proteins is functionally uncharacterized.This
family of proteins is found in eukaryotes. Proteins in
this family are typically between 578 and 2525 amino
acids in length.
Length = 420
Score = 31.5 bits (72), Expect = 1.4
Identities = 17/79 (21%), Positives = 26/79 (32%), Gaps = 4/79 (5%)
Query: 412 SIILILNQN-KNLKTVLEEVQKLQQEIKNADTE-VQIKHKNDISKL--NLTPKSRAQLKQ 467
+ + N NL + Q + E +Q S N++P SR QL
Sbjct: 121 EVSPMTNSQFANLTQPYADNDTALQFLFAYSREDIQTVRLPSFSDSLWNISPPSRQQLLN 180
Query: 468 NLLESIKQDKLQFEFDIKR 486
L + L F + R
Sbjct: 181 TLNNNTNTVTLTFTWQFTR 199
>gnl|CDD|147526 pfam05388, Carbpep_Y_N, Carboxypeptidase Y pro-peptide. This
family is found at the N terminus of several
carboxypeptidase Y proteins and contains a signal
peptide and pro-peptide regions.
Length = 105
Score = 29.8 bits (67), Expect = 1.4
Identities = 12/67 (17%), Positives = 32/67 (47%), Gaps = 7/67 (10%)
Query: 424 KTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFD 483
+ V E + ++ + IK E+++ N + +L K + ++ K+D ++F+
Sbjct: 42 EAVGEPLDEIPKNIKQIWLEMEMLFPNTVGQLEFKTKPKFKIT-------KKDATFWDFN 94
Query: 484 IKREKFS 490
++ +K
Sbjct: 95 VENDKVP 101
>gnl|CDD|223496 COG0419, SbcC, ATPase involved in DNA repair [DNA replication,
recombination, and repair].
Length = 908
Score = 31.7 bits (72), Expect = 1.5
Identities = 24/143 (16%), Positives = 53/143 (37%), Gaps = 14/143 (9%)
Query: 379 LQLIQFISKQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIK 438
Q K E LE+ + ++ + ++EL E +K + I + L++ E+++L++E++
Sbjct: 678 ENEEQLEEKLEELEQLEEELEQL-REELEELLKKLGEIEQLIEELESRKAELEELKKELE 736
Query: 439 NADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDK-LQFEFDIKREKFSIKQD-KL 496
K + +L R +L + L + L E S +
Sbjct: 737 KL-----EKALELLEEL------REKLGKAGLRADILRNLLAQIEAEANEILSKLSLNRY 785
Query: 497 QFEFDIKREKFVQYLIKNLFRNY 519
R+ L+ ++
Sbjct: 786 DLRRLTIRKDGNGGLVVVVYDGG 808
Score = 31.3 bits (71), Expect = 1.7
Identities = 21/129 (16%), Positives = 65/129 (50%), Gaps = 8/129 (6%)
Query: 379 LQLIQFISKQELLEKCLQLIQFI--SKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQE 436
L+L ++E L + +L++ + + L E + I + + + L+ +LEE+++L ++
Sbjct: 264 LELEALKIREEELRELERLLEELEEKIERLEELEREIEELEEELEGLRALLEELEELLEK 323
Query: 437 IKNADTEVQIKH------KNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREKFS 490
+K+ + ++ ++++ +L A+L + L+ +++ + E ++++
Sbjct: 324 LKSLEERLEKLEEKLEKLESELEELAEEKNELAKLLEERLKELEERLEELEKELEKALER 383
Query: 491 IKQDKLQFE 499
+KQ + +
Sbjct: 384 LKQLEEAIQ 392
Score = 29.7 bits (67), Expect = 6.0
Identities = 24/147 (16%), Positives = 65/147 (44%), Gaps = 10/147 (6%)
Query: 375 FKQCLQLIQFISKQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQ 434
+ L+ ++ + ++ L++ + ++ + L+++K ++ L + K LEE+++
Sbjct: 538 LENLLEELEELKEKLQLQQLKEELRQLED--RLQELKELLEELRLLRTRKEELEELRERL 595
Query: 435 QEIKNADTEVQIKHKNDISKLN-LTPKSRAQLKQNLLESIK--QDKLQFEFDIKREKFSI 491
+E+K E++ + L L + E ++ +KL + +++ +
Sbjct: 596 KELKKKLKELEERLSQLEELLQSLELSEAENELEEAEEELESELEKLNLQAELEE----L 651
Query: 492 KQDKLQFEFDIKREKFVQYLIKNLFRN 518
Q L+ E + K E+ + + L R
Sbjct: 652 LQAALE-ELEEKVEELEAEIRRELQRI 677
>gnl|CDD|114219 pfam05483, SCP-1, Synaptonemal complex protein 1 (SCP-1).
Synaptonemal complex protein 1 (SCP-1) is the major
component of the transverse filaments of the
synaptonemal complex. Synaptonemal complexes are
structures that are formed between homologous
chromosomes during meiotic prophase.
Length = 787
Score = 31.6 bits (71), Expect = 1.6
Identities = 23/89 (25%), Positives = 45/89 (50%), Gaps = 3/89 (3%)
Query: 416 ILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQ 475
+L + K +K + + L+++I+N + ++ H+ + + L K A+ KQ IK
Sbjct: 582 VLKKEKQMKILENKCNNLKKQIENKNKNIEELHQENKA---LKKKGSAENKQLNAYEIKV 638
Query: 476 DKLQFEFDIKREKFSIKQDKLQFEFDIKR 504
+KL+ E ++KF D Q E + K+
Sbjct: 639 NKLELELASAKQKFEEIIDNYQKEIEDKK 667
>gnl|CDD|238103 cd00176, SPEC, Spectrin repeats, found in several proteins involved
in cytoskeletal structure; family members include
spectrin, alpha-actinin and dystrophin; the spectrin
repeat forms a three helix bundle with the second helix
interrupted by proline in some sequences; the repeats
are independent folding units; tandem repeats are found
in differing numbers and arrange in an antiparallel
manner to form dimers; the repeats are defined by a
characteristic tryptophan (W) residue in helix A and a
leucine (L) at the carboxyl end of helix C and separated
by a linker of 5 residues; two copies of the repeat are
present here.
Length = 213
Score = 30.5 bits (69), Expect = 1.8
Identities = 21/95 (22%), Positives = 44/95 (46%), Gaps = 3/95 (3%)
Query: 386 SKQELLEKCLQLIQFISKQELLEK-VKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEV 444
+++ LE+ L L QF + LE+ ++ L K LE V++L ++ K + E+
Sbjct: 97 ERRQRLEEALDLQQFFRDADDLEQWLEEKEAALASEDLGKD-LESVEELLKKHKELEEEL 155
Query: 445 QIKHKNDISKLNLTPKSRAQLKQNLLESIKQDKLQ 479
+ H+ + LN + + + ++KL+
Sbjct: 156 E-AHEPRLKSLNELAEELLEEGHPDADEEIEEKLE 189
>gnl|CDD|203244 pfam05400, FliT, Flagellar protein FliT. This family contains
several bacterial flagellar FliT proteins. The flagellar
proteins FlgN and FliT have been proposed to act as
substrate specific export chaperones, facilitating
incorporation of the enterobacterial hook-associated
axial proteins (HAPs) FlgK/FlgL and FliD into the
growing flagellum. In Salmonella typhimurium flgN and
fliT mutants, the export of target HAPs is reduced,
concomitant with loss of unincorporated flagellin into
the surrounding medium.
Length = 82
Score = 28.5 bits (64), Expect = 2.1
Identities = 13/59 (22%), Positives = 29/59 (49%), Gaps = 6/59 (10%)
Query: 388 QELLEKCLQLIQFISKQEL-----LEKVKSIILILNQNKNLKTVLE-EVQKLQQEIKNA 440
EL ++ QL++ + + L EK + + IL + ++ +L+ + +L Q + A
Sbjct: 14 AELEDEREQLLERLREAPLSPPESEEKRELLRRILANDAEIRALLQPRLDELSQLLGQA 72
>gnl|CDD|219008 pfam06398, Pex24p, Integral peroxisomal membrane peroxin.
Peroxisomes play diverse roles in the cell,
compartmentalising many activities related to lipid
metabolism and functioning in the decomposition of toxic
hydrogen peroxide. Sequence similarity was identified
between two hypothetical proteins and the peroxin
integral membrane protein Pex24p.
Length = 360
Score = 30.8 bits (70), Expect = 2.1
Identities = 28/97 (28%), Positives = 40/97 (41%), Gaps = 12/97 (12%)
Query: 168 LLILHEYLVTLPFILILGVSTSPSII--HSTLNYDV-ISTMKIHTFYNQPSIESLNLITD 224
L+ + LV+LP +L P + HS L IS+ T P+++ +
Sbjct: 55 CLVPYLLLVSLPLGPLLFGIMVPGYLWRHSPLPRSSLISSDLNPTPAEGPTLDEAE--SM 112
Query: 225 NIILN-----NKFPLILH-HTILE-FLIDNFLFYDFS 254
I+LN NK L+L LE FL F D S
Sbjct: 113 EIVLNLRDLQNKMTLLLSPIDFLEKFLYPFFKDEDLS 149
>gnl|CDD|235751 PRK06241, PRK06241, phosphoenolpyruvate synthase; Validated.
Length = 871
Score = 31.0 bits (71), Expect = 2.3
Identities = 27/125 (21%), Positives = 51/125 (40%), Gaps = 14/125 (11%)
Query: 413 IILILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLES 472
I +L K ++ + +K+A T + IK K+ I L PK +A LK + +
Sbjct: 371 ITNLLASPAGRKLLINMLGVSDPLMKDALTTL-IKRKDFIKLL---PKGKAALKS-ISKF 425
Query: 473 IKQDKLQFEFDIKREKFSIKQDK---LQFEFDIKRE------KFVQYLIKNLFRNYFTPI 523
+ ++ FE D + I + + + + DI+ + F+ I+ L F P
Sbjct: 426 LPIIQIYFENDPAIVEELIARSEASIAELKQDIQTKSGDELFDFILEDIQQLKDILFDPQ 485
Query: 524 QNMPL 528
+
Sbjct: 486 SYAFV 490
>gnl|CDD|224212 COG1293, COG1293, Predicted RNA-binding protein homologous to
eukaryotic snRNP [Transcription].
Length = 564
Score = 30.8 bits (70), Expect = 2.6
Identities = 26/127 (20%), Positives = 52/127 (40%), Gaps = 12/127 (9%)
Query: 389 ELLEKCLQLIQFISKQELL---EKVKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEVQ 445
ELL LQLI+ K L + I + L+++K + K +++K A +
Sbjct: 324 ELLYANLQLIEEGLKSVRLADFYGNEEIKIELDKSKTPSENAQRYFKKYKKLKGAKVNLD 383
Query: 446 IK---HKNDISKLNLTPKSRAQLK-QNLLESIKQDKLQFEFDIKREKFSIKQDKLQFEFD 501
+ K I+ + + + + +E I+++ ++ + K ++ K FE
Sbjct: 384 RQLSELKEAIAYYESAKTALEKAEGKKAIEEIREELIEEGL--LKSKKKKRKKKEWFE-- 439
Query: 502 IKREKFV 508
K FV
Sbjct: 440 -KFRWFV 445
>gnl|CDD|153344 cd07660, BAR_Arfaptin, The Bin/Amphiphysin/Rvs (BAR) domain of
Arfaptin. The BAR domain of Arfaptin-like proteins,
also called the Arfaptin domain, is a dimerization and
lipid binding module that can detect and drive membrane
curvature. Arfaptins are ubiquitously expressed proteins
implicated in mediating cross-talk between Rac, a member
of the Rho family GTPases, and Arf (ADP-ribosylation
factor) small GTPases. Arfaptins bind to GTP-bound Arf1,
Arf5, and Arf6, with strongest binding to GTP-Arf1.
Arfaptins also bind to Rac-GTP and Rac-GDP with similar
affinities. The Arfs are thought to bind to the same
surface as Rac, and their binding is mutually exclusive.
Mammals contain at least two isoforms of Arfaptin.
Arfaptin 1 has been shown to inhibit the activation of
Arf-dependent phospholipase D (PLD) and the secretion of
matrix metalloproteinase-9 (MMP-9), an enzyme implicated
in cancer invasiveness and metastasis. Arfaptin 2
regulates the aggregation of the protein huntingtin,
which is implicated in Huntington disease. Arfaptins are
single-domain proteins with a BAR-like structure. BAR
domains form dimers that bind to membranes, induce
membrane bending and curvature, and may also be involved
in protein-protein interactions.
Length = 201
Score = 30.0 bits (68), Expect = 2.6
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 11/55 (20%)
Query: 448 HKNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREKFS-IKQD---KLQF 498
++ND+ LNL P+ A S + ++ Q F ++K+ ++ D KL+F
Sbjct: 116 YRNDLEALNLGPRDAAT-------SARLEEAQRRFQAHKDKYEKLRNDVSVKLKF 163
>gnl|CDD|215507 PLN02939, PLN02939, transferase, transferring glycosyl groups.
Length = 977
Score = 30.6 bits (69), Expect = 3.3
Identities = 26/114 (22%), Positives = 50/114 (43%), Gaps = 12/114 (10%)
Query: 398 IQFISKQELLEKVKSIILILNQNK-----NLKTVLEEVQKLQQEIKNADTEVQIKHKNDI 452
Q +++ + IL+LNQ + +L+ +L E + LQ +I E+++ +
Sbjct: 128 FQLEDLVGMIQNAEKNILLLNQARLQALEDLEKILTEKEALQGKINI--LEMRLSETDAR 185
Query: 453 SKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREKFSIKQDKLQFEFDIKREK 506
KL K ++ + LE KL+ E I+ + L E D+ +E+
Sbjct: 186 IKLAAQEKIHVEILEEQLE-----KLRNELLIRGATEGLCVHSLSKELDVLKEE 234
>gnl|CDD|151277 pfam10828, DUF2570, Protein of unknown function (DUF2570). This is
a family of proteins with unknown function.
Length = 110
Score = 28.7 bits (64), Expect = 3.6
Identities = 20/77 (25%), Positives = 38/77 (49%), Gaps = 8/77 (10%)
Query: 399 QFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLT 458
Q I +Q+ + + + L Q + +EE QK+ EI+ E + K + +
Sbjct: 39 QTIEQQQ--KANQRLTDALEQERQ---AVEEQQKIANEIERKAEENAEEVKTILKQ---Q 90
Query: 459 PKSRAQLKQNLLESIKQ 475
P ++ L Q++L+SIK+
Sbjct: 91 PCAKTDLPQSVLDSIKR 107
>gnl|CDD|233279 TIGR01125, TIGR01125, ribosomal protein S12 methylthiotransferase
RimO. Members of this protein are the
methylthiotransferase RimO, which modifies a conserved
Asp residue in ribosomal protein S12. This clade of
radical SAM family proteins is closely related to the
tRNA modification bifunctional enzyme MiaB (see
TIGR01574), and it catalyzes the same two types of
reactions: a radical-mechanism sulfur insertion, and a
methylation of the inserted sulfur. This clade spans
alpha and gamma proteobacteria, cyano bacteria,
Deinococcus, Porphyromonas, Aquifex, Helicobacter,
Campylobacter, Thermotoga, Chlamydia, Streptococcus
coelicolor and Clostridium, but does not include most
other gram positive bacteria, archaea or eukaryotes
[Protein synthesis, Ribosomal proteins: synthesis and
modification].
Length = 430
Score = 29.7 bits (67), Expect = 5.2
Identities = 18/70 (25%), Positives = 30/70 (42%)
Query: 387 KQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEVQI 446
K+E LE+ +QL Q IS ++ E V I +L +T L + + + D V +
Sbjct: 344 KEERLERLMQLQQRISAKKNQEFVGKKIEVLIDGYEPETNLLLIGRTYGQAPEVDGVVYV 403
Query: 447 KHKNDISKLN 456
K+
Sbjct: 404 NGAKLNVKIG 413
>gnl|CDD|235210 PRK04040, PRK04040, adenylate kinase; Provisional.
Length = 188
Score = 29.1 bits (66), Expect = 5.6
Identities = 14/35 (40%), Positives = 18/35 (51%), Gaps = 1/35 (2%)
Query: 8 MEVLEARAMDLTPTRDITTVDTIAPAI-MDREAAM 41
E+L R D T RD+ T + I M+R AAM
Sbjct: 122 DEILMRRLRDETRRRDVETEEDIEEHQEMNRAAAM 156
>gnl|CDD|234252 TIGR03545, TIGR03545, TIGR03545 family protein. This model
represents a relatively rare but broadly distributed
uncharacterized protein family, distributed in 1-2
percent of bacterial genomes, all of which have outer
membranes. In many of these genomes, it is part of a
two-gene pair.
Length = 555
Score = 29.7 bits (67), Expect = 5.8
Identities = 35/137 (25%), Positives = 62/137 (45%), Gaps = 21/137 (15%)
Query: 396 QLIQFISKQELLEKVKSI-ILILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISK 454
L +E +++++I + L+ + EE KL++E K AD + KND+
Sbjct: 186 DLPNKQDLEEYKKRLEAIKKKDIKNPLELQKIKEEFDKLKKEGK-ADKQKIKSAKNDLQ- 243
Query: 455 LNLTPKSRAQLKQNL--LESIKQDKLQFEFDIKR--EKFSIKQDKLQ-FEFDIKREKFVQ 509
+ QLK +L L+ Q+ D+KR K++IK L+ F D+ + +
Sbjct: 244 -----NDKKQLKADLAELKKAPQN------DLKRLENKYAIKSGDLKNFAVDLFGPEIRK 292
Query: 510 YLIKNLFRNYFTPIQNM 526
YL K F Y+ + +
Sbjct: 293 YLQK--FLKYYDQAEPL 307
>gnl|CDD|234501 TIGR04211, SH3_and_anchor, SH3 domain protein. Members of this
protein family have a signal peptide, a strongly
conserved SH3 domain, a variable region, and then a
C-terminal hydrophobic transmembrane alpha helix region.
Length = 198
Score = 28.8 bits (65), Expect = 5.8
Identities = 16/66 (24%), Positives = 32/66 (48%), Gaps = 11/66 (16%)
Query: 380 QLIQFISKQELLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKN 439
+L ++ E L+K L I+ +S I + +N+ L+ EE+ +L+QE +
Sbjct: 102 ELSTLEAELERLQKELARIKQLSAN--------AIELDEENRELR---EELAELKQENEA 150
Query: 440 ADTEVQ 445
+ E +
Sbjct: 151 LEAENE 156
>gnl|CDD|206333 pfam14164, YqzH, YqzH-like protein. The YqzH-like protein family
includes the B. subtilis YqzH protein, which is
functionally uncharacterized. This family of proteins is
found in bacteria. Proteins in this family are
approximately 60 amino acids in length.
Length = 64
Score = 26.9 bits (60), Expect = 6.5
Identities = 9/26 (34%), Positives = 15/26 (57%)
Query: 505 EKFVQYLIKNLFRNYFTPIQNMPLHE 530
EK ++ +I+N R Y + MPL +
Sbjct: 3 EKLIEKMIRNCLRQYGYDDECMPLSD 28
>gnl|CDD|153341 cd07657, F-BAR_Fes_Fer, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Fes (feline sarcoma) and
Fer (Fes related) tyrosine kinases. F-BAR domains are
dimerization modules that bind and bend membranes and
are found in proteins involved in membrane dynamics and
actin reorganization. Fes (feline sarcoma), also called
Fps (Fujinami poultry sarcoma), and Fer (Fes related)
are cytoplasmic (or nonreceptor) tyrosine kinases that
play roles in haematopoiesis, inflammation and immunity,
growth factor signaling, cytoskeletal regulation, cell
migration and adhesion, and the regulation of cell-cell
interactions. Although Fes and Fer show redundancy in
their biological functions, they show differences in
their expression patterns. Fer is ubiquitously expressed
while Fes is expressed predominantly in myeloid and
endothelial cells. Fes and Fer contain an N-terminal
F-BAR domain, an SH2 domain, and a C-terminal catalytic
kinase domain. F-BAR domains form banana-shaped dimers
with a positively-charged concave surface that binds to
negatively-charged lipid membranes. They can induce
membrane deformation in the form of long tubules. The
F-BAR domain of Fes is critical in its role in
microtubule nucleation and bundling.
Length = 237
Score = 28.9 bits (65), Expect = 6.6
Identities = 17/82 (20%), Positives = 36/82 (43%), Gaps = 3/82 (3%)
Query: 415 LILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIK 474
LI ++ K K EE Q++ ++ K EV+ L ++++ ++ + +K
Sbjct: 99 LIKDKRKAKKAYQEERQQIDEQYKKLTDEVEKLKSEYQKLLEDYKAAKSKFEEAV---VK 155
Query: 475 QDKLQFEFDIKREKFSIKQDKL 496
+ + D R+K+ KL
Sbjct: 156 GGRGGRKLDKARDKYQKACRKL 177
>gnl|CDD|189016 cd09609, M3B_PepF_4, Peptidase family M3B Oligopeptidase F (PepF).
Peptidase family M3B Oligopeptidase F (PepF;
Pz-peptidase B; EC 3.4.24.-) is mostly bacterial and
includes oligoendopeptidase F from Lactococcus lactis.
This enzyme hydrolyzes peptides containing between 7 and
17 amino acids with fairly broad specificity. The PepF
gene is duplicated in L. lactis on the plasmid that
bears it, while a shortened second copy is found in
Bacillus subtilis. Most bacterial PepFs are cytoplasmic
endopeptidases; however, the PepF Bacillus
amyloliquefaciens oligopeptidase is a secreted protein
and may facilitate the process of sporulation.
Specifically, the yjbG gene encoding the homolog of the
PepF1 and PepF2 oligoendopeptidases of Lactococcus
lactis has been identified in Bacillus subtilis as an
inhibitor of sporulation initiation when over expressed
from a multicopy plasmid.
Length = 586
Score = 29.5 bits (67), Expect = 7.0
Identities = 12/44 (27%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 117 ESDEDVEVNLKKTHYDFLNFQD-YYNEIGCKDKLIIALQDYESF 159
+++E E LKK +F+ Y ++ + ++ AL DYE
Sbjct: 17 KTEEAFEAALKKLKELAKDFKKKYKGKLTDAETILSALDDYEEI 60
>gnl|CDD|114011 pfam05262, Borrelia_P83, Borrelia P83/100 protein. This family
consists of several Borrelia P83/P100 antigen proteins.
Length = 489
Score = 29.2 bits (65), Expect = 7.4
Identities = 18/91 (19%), Positives = 43/91 (47%), Gaps = 6/91 (6%)
Query: 421 KNLKTVLEEVQKLQQEIKNAD-----TEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQ 475
N +EV++ QQE KN + + + ++ K++ ++K+N E +
Sbjct: 241 DNADKQRDEVRQKQQEAKNLPKPADTSSPKEDKQVAENQKREIEKAQIEIKKN-DEEALK 299
Query: 476 DKLQFEFDIKREKFSIKQDKLQFEFDIKREK 506
K FD+K+E + +++ E + ++++
Sbjct: 300 AKDHKAFDLKQESKASEKEAEDKELEAQKKR 330
>gnl|CDD|226889 COG4487, COG4487, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 438
Score = 29.0 bits (65), Expect = 7.7
Identities = 26/131 (19%), Positives = 58/131 (44%), Gaps = 12/131 (9%)
Query: 380 QLIQFISKQE-LLEKCLQLIQFISKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIK 438
QLI +Q+ L + ++ + + E+ + +L L ++K L+ + +E+ +L +E++
Sbjct: 72 QLINQKKEQKNLFNEQIKQFELALQDEIAKLEALELLNLEKDKELELLEKELDELSKELQ 131
Query: 439 NADTEVQIKHKNDISKLNLTPKSRAQLKQNLLESIKQDKLQFEFDIKREKF--SIKQDKL 496
+N + K + L+ + KL+ +++REKF + + L
Sbjct: 132 KQ-------LQNTAEIIEK--KRENNKNEERLKFENEKKLEESLELEREKFEEQLHEANL 182
Query: 497 QFEFDIKREKF 507
EF E+
Sbjct: 183 DLEFKENEEQR 193
>gnl|CDD|197874 smart00787, Spc7, Spc7 kinetochore protein. This domain is found
in cell division proteins which are required for
kinetochore-spindle association.
Length = 312
Score = 28.8 bits (65), Expect = 7.9
Identities = 16/93 (17%), Positives = 36/93 (38%), Gaps = 6/93 (6%)
Query: 411 KSIILILNQNKN-LKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNL---TPKSRAQLK 466
+ + L++N LK + + K + + + +++ + +L
Sbjct: 143 EGLKEGLDENLEGLKEDYKLLMKELELLNSIKPKLRDRKDALEEELRQLKQLEDELEDCD 202
Query: 467 QNLLESIKQD--KLQFEFDIKREKFSIKQDKLQ 497
L+ K+ KL E IK +K +++LQ
Sbjct: 203 PTELDRAKEKLKKLLQEIMIKVKKLEELEEELQ 235
>gnl|CDD|224495 COG1579, COG1579, Zn-ribbon protein, possibly nucleic acid-binding
[General function prediction only].
Length = 239
Score = 28.5 bits (64), Expect = 8.1
Identities = 18/97 (18%), Positives = 47/97 (48%), Gaps = 12/97 (12%)
Query: 402 SKQELLEKVKSIILILNQNKNLKTVLEEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKS 461
++ L+K K+ + NK L+ + E++ L+ ++ + +++I ++
Sbjct: 28 EIRKALKKAKA--ELEALNKALEALEIELEDLENQVS--------QLESEIQEIR-ERIK 76
Query: 462 RAQLKQNLLESIKQ-DKLQFEFDIKREKFSIKQDKLQ 497
RA+ K + ++ ++ L E I +E+ + +D+L
Sbjct: 77 RAEEKLSAVKDERELRALNIEIQIAKERINSLEDELA 113
>gnl|CDD|235175 PRK03918, PRK03918, chromosome segregation protein; Provisional.
Length = 880
Score = 28.9 bits (65), Expect = 9.1
Identities = 17/69 (24%), Positives = 35/69 (50%), Gaps = 2/69 (2%)
Query: 405 ELLEKVKSIILILNQNKNLKTVL--EEVQKLQQEIKNADTEVQIKHKNDISKLNLTPKSR 462
EL E+ K+ L + K T L E+++K +E++ A E++ + +++ K
Sbjct: 362 ELYEEAKAKKEELERLKKRLTGLTPEKLEKELEELEKAKEEIEEEISKITARIGELKKEI 421
Query: 463 AQLKQNLLE 471
+LK+ + E
Sbjct: 422 KELKKAIEE 430
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 0.136 0.384
Gapped
Lambda K H
0.267 0.0788 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 30,097,468
Number of extensions: 2990136
Number of successful extensions: 3363
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3315
Number of HSP's successfully gapped: 175
Length of query: 608
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 505
Effective length of database: 6,369,140
Effective search space: 3216415700
Effective search space used: 3216415700
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: 62 (27.5 bits)