RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy15131
(529 letters)
>gnl|CDD|216919 pfam02181, FH2, Formin Homology 2 Domain.
Length = 372
Score = 300 bits (771), Expect = 5e-98
Identities = 139/401 (34%), Positives = 221/401 (55%), Gaps = 35/401 (8%)
Query: 16 KPKKKWDVGGIKRANWKTINTQKLSEKSFWVKVKEEELASPDILTGLAQKFSSKPANKKA 75
KPKKK +K +W +N + W ++ EE L+ L + FS+K KK+
Sbjct: 6 KPKKK-----LKPLHWDKVNPAQDRGT-VWDELDEESFEKDLDLSELEELFSAKAKKKKS 59
Query: 76 DDNVDKCGTLKRYWTARQRRTSKKADDNVDKCGTLKRVKALKVLDSKAAQNLSILLGGSL 135
+ K S K K+ K + VLD K +QN++ILL L
Sbjct: 60 KKSEKKS--------------SSK-----------KKKKEISVLDPKRSQNIAILLR-KL 93
Query: 136 KHYSYEEVKLSILRCDTNILSGNVLEQLISYLPPPDQLQRLKELSGDYANLTEAEQFAVT 195
EE+ +IL D ++L +LE L+ P ++L++LKE GD + L AEQF +
Sbjct: 94 -KLPPEEIVQAILEMDESVLGLELLENLLKMAPTKEELKKLKEYKGDPSKLGRAEQFLLE 152
Query: 196 IAEIKRLLPRLKSMHFKQHFQEMYTDCHKNIINGKQACEEVKQSKKLAKILELILLMGNY 255
+++I RL RL+++ FK F+E + ++ + A EE+++S+K K+LELIL +GNY
Sbjct: 153 LSKIPRLEERLEALLFKSTFEEEVEELKPSLETLEAASEELRESRKFKKLLELILALGNY 212
Query: 256 MNSGSRNGGAFGFEINFLTKLSSTKDIENKTTLLHYLVDTIEQKFPECLKFGDELLHVDR 315
MNSG+R G A GF+++ L KLS TK +NKTTLLHYLV I +K P+ L F EL HV++
Sbjct: 213 MNSGTRRGNAKGFKLSSLLKLSDTKSTDNKTTLLHYLVKIIREKLPDLLDFSSELSHVEK 272
Query: 316 AARVSTDVIQNSIRQMENNIKNLETDIQNCKQAPVANENDKFLEIMEPFAKEVRQKITLL 375
AA+V + ++ ++++E +K LE +++ + +DKF+E M+ F +E +K+ L
Sbjct: 273 AAKVDLEQLEKDVKELEKGLKKLERELELSALDE--HPDDKFVEKMKEFLEEAEEKLDKL 330
Query: 376 SNMSKNMMTLYGDLAEFYTFDKNIYTLEEFFTDIKTFKDSF 416
++ K M L+ +L E++ D + EEFF ++ F F
Sbjct: 331 ESLLKEAMELFKELTEYFGEDPKETSPEEFFKILRDFLRMF 371
>gnl|CDD|214697 smart00498, FH2, Formin Homology 2 Domain. FH proteins control
rearrangements of the actin cytoskeleton, especially in
the context of cytokinesis and cell polarisation.
Members of this family have been found to interact with
Rho-GTPases, profilin and other actin-assoziated
proteins. These interactions are mediated by the
proline-rich FH1 domain, usually located in front of FH2
(but not listed in SMART). Despite this cytosolic
function, vertebrate formins have been assigned
functions within the nucleus. A set of Formin-Binding
Proteins (FBPs) has been shown to bind FH1 with their WW
domain.
Length = 392
Score = 275 bits (705), Expect = 8e-88
Identities = 157/465 (33%), Positives = 230/465 (49%), Gaps = 79/465 (16%)
Query: 16 KPKKKWDVGGIKRANWKTINTQKLSEKSFWVKVKEEELASPDILTGLAQKFSSKPANKKA 75
KPKKK +K +W +N LS + W K+ EE S L L + FS+K K A
Sbjct: 5 KPKKK-----LKPLHWDKLNPSDLSG-TVWDKIDEE---SEGDLDELEELFSAKEKTKSA 55
Query: 76 DDNVDKCGTLKRYWTARQRRTSKKADDNVDKCGTLKRVKALKVLDSKAAQNLSILLGGSL 135
+V + ++ KKA + K+LD K +QNL+ILL
Sbjct: 56 SKDVSEKKSIL----------KKKA------------SQEFKILDPKRSQNLAILLRKL- 92
Query: 136 KHYSYEEVKLSILRCDTNILSGNVLEQLISYLPPPDQLQRLKELSGDYAN-LTEAEQFAV 194
H SYEE+K +IL D ++LS ++LEQL+ Y P ++L++L+E + L AEQF +
Sbjct: 93 -HMSYEEIKEAILEGDEDVLSVDLLEQLLKYAPTKEELKKLREYKEEDPEELARAEQFLL 151
Query: 195 TIAEIKRLLPRLKSMHFKQHFQEMYTDCHKNIINGKQACEEVKQSKKLAKILELILLMGN 254
I+ I L RL ++ FK +F+E D I + ACEE+++SKK K+LELIL +GN
Sbjct: 152 LISNIPYLEERLNALLFKANFEEEVEDLKPQIEKVEAACEELRESKKFRKLLELILAIGN 211
Query: 255 YMNSGSRNGGAFGFEINFLTKLSSTKDIENKTTLLHYLVDTIEQKFPECLKFGDELLHVD 314
YMN GSR G A+GF+++ L KLS K +NKTTLLH+LV I +K+
Sbjct: 212 YMNGGSRRGQAYGFKLSSLLKLSDVKSADNKTTLLHFLVKIIRKKY-------------- 257
Query: 315 RAARVSTDVIQNSIRQMENNIKNLETDIQNCKQAPVANENDKFLEIMEPFAKEVRQKITL 374
+ L N +DKF+E+M+PF K ++K
Sbjct: 258 --------------------LGGLS---------DPENLDDKFIEVMKPFLKAAKEKYDK 288
Query: 375 LSNMSKNMMTLYGDLAEFYTFDKNIYTLEEFFTDIKTFKDSFYQAWQENIKLREAEEKSI 434
L ++ T + L E+Y D + EEFF D F F +A +ENIK E EE+
Sbjct: 289 LQKDLSDLKTRFEKLVEYYGEDPKDTSPEEFFKDFNEFLKEFSKAAEENIKKEEEEEERR 348
Query: 435 RVREAREKAENEK-KDKAARKKALIDMTTDQTQQGVMDSLLEALQ 478
+ + +E E E+ + + +D ++ GV+DSLLE L
Sbjct: 349 K-KLVKETTEYEQSSSRQKERNPSMDFEVERDFLGVLDSLLEELG 392
>gnl|CDD|115029 pfam06345, Drf_DAD, DRF Autoregulatory Domain. This motif is found
in Diaphanous-related formins. It binds the N-terminal
GTPase-binding domain; this link is broken when
GTP-bound Rho binds to the GBD and activates the
protein. The addition of DAD to mammalian cells induces
actin filament formation, stabilises microtubules, and
activates serum-response mediated transcription.
Length = 15
Score = 33.1 bits (75), Expect = 0.012
Identities = 13/15 (86%), Positives = 15/15 (100%)
Query: 468 GVMDSLLEALQTGSA 482
GVMDSLLEALQ+G+A
Sbjct: 1 GVMDSLLEALQSGAA 15
>gnl|CDD|233791 TIGR02231, TIGR02231, conserved hypothetical protein. This family
consists of proteins over 500 amino acids long in
Caenorhabditis elegans and several bacteria (Pseudomonas
aeruginosa, Nostoc sp. PCC 7120, Leptospira interrogans,
etc.). The function is unknown.
Length = 525
Score = 33.2 bits (76), Expect = 0.35
Identities = 14/75 (18%), Positives = 22/75 (29%), Gaps = 5/75 (6%)
Query: 439 AREKAENEKKDKAARKKALIDMTTD--QTQQGVMDSLLEALQTGSAFTREQRRKRQNDRP 496
RE KD A R + + ++ LL + RE ++
Sbjct: 107 IREGLTEPIKDSAKRNEPDLKEWFQAFDFNGSEIERLLTEDREAERRIRELEKQLSE--- 163
Query: 497 MGAERRAQLNRSRSR 511
+ E A L R
Sbjct: 164 LQNELNALLTGKSQR 178
>gnl|CDD|237117 PRK12493, PRK12493, magnesium chelatase subunit H; Provisional.
Length = 1310
Score = 33.4 bits (77), Expect = 0.37
Identities = 15/44 (34%), Positives = 21/44 (47%), Gaps = 7/44 (15%)
Query: 163 LISYLPPPDQ-------LQRLKELSGDYANLTEAEQFAVTIAEI 199
LISYL PP + L+ L EL G Y L ++ + + I
Sbjct: 651 LISYLTPPAENAGLYKGLRELSELIGSYQQLPDSGRGIQIVNTI 694
>gnl|CDD|227003 COG4656, RnfC, Predicted NADH:ubiquinone oxidoreductase, subunit
RnfC [Energy production and conversion].
Length = 529
Score = 32.7 bits (75), Expect = 0.46
Identities = 29/116 (25%), Positives = 48/116 (41%), Gaps = 19/116 (16%)
Query: 409 IKTFKDSFYQAWQENIKLREAEEKSIR-----VREAREKAENEKKDKAARKKALIDMTTD 463
++ F+ + + +L++AEE R R REKAE KKA + +
Sbjct: 423 VQYFRQEKAEILAQRQELKKAEEAKTRFEARTARLEREKAERI----PRMKKAAVKRLSF 478
Query: 464 QTQQGVMDSLLEALQTGSAFTREQRRKRQNDRPMGAERRAQLNRSRSRNGIVITRE 519
T +D++ AL+ R + +K +P A L S +G+V RE
Sbjct: 479 VTAAL-IDAIAAALE------RVKEKKAYAKQPSAALGAPIL---PSNSGLVAARE 524
>gnl|CDD|238560 cd01140, FatB, Siderophore binding protein FatB. These proteins
have been shown to function as ABC-type initial
receptors in the siderophore-mediated iron uptake in
some eubacterial species. They belong to the TroA
superfamily of periplasmic metal binding proteins that
share a distinct fold and ligand binding mechanism. A
typical TroA protein is comprised of two globular
subdomains connected by a single helix and can bind
their ligands in the cleft between these domains.
Length = 270
Score = 31.8 bits (73), Expect = 0.71
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 1/78 (1%)
Query: 387 GDLAEFYTFDKNIYTLEEFFTDIKTFKDSFYQAWQENIKLREAEEKSIRVREAREKAENE 446
G LAE Y K I + D+K + +S Q + K+ EE++ + + + E
Sbjct: 80 GRLAEKYDELKKIAPTIDLGADLKNYLESVKQNIETLGKIFGKEEEAKELVAEIDASIAE 139
Query: 447 KKDKAARK-KALIDMTTD 463
K A K KAL+ +
Sbjct: 140 AKSAAKGKKKALVVLVNG 157
>gnl|CDD|188647 cd05396, An_peroxidase_like, Animal heme peroxidases and related
proteins. A diverse family of enzymes, which includes
prostaglandin G/H synthase, thyroid peroxidase,
myeloperoxidase, linoleate diol synthase,
lactoperoxidase, peroxinectin, peroxidasin, and others.
Despite its name, this family is not restricted to
metazoans: members are found in fungi, plants, and
bacteria as well.
Length = 370
Score = 31.6 bits (72), Expect = 1.0
Identities = 14/60 (23%), Positives = 20/60 (33%), Gaps = 4/60 (6%)
Query: 380 KNMMTLYGDLAEFYTFDKNIYTLEEFFTDIKTFKDSFYQA----WQENIKLREAEEKSIR 435
K + F D Y L EFFT F S EN + +E + ++
Sbjct: 138 KFTDPRDDLVLLFPDPDVVPYVLSEFFTAAYRFGHSLVPEGVDRIDENGQPKEIPDVPLK 197
>gnl|CDD|184753 PRK14581, hmsF, outer membrane N-deacetylase; Provisional.
Length = 672
Score = 31.5 bits (71), Expect = 1.1
Identities = 26/107 (24%), Positives = 43/107 (40%), Gaps = 17/107 (15%)
Query: 361 MEPFAKEVRQKITLLSNMSKNMMTLYGDLAEFYTFDKNIYTLEEFFTDIKTFKDSFYQAW 420
+ PF EVRQ+I + +Y D+A D IY + +D F A
Sbjct: 435 LSPFNPEVRQRI----------IDIYRDMAYSAPIDGIIYHDDAVMSD-------FEDAS 477
Query: 421 QENIKLREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQQ 467
+ I+ E + R+ E ++ + K LID T + T++
Sbjct: 478 PDAIRAYEKAGFPGSITTIRQDPEMMQRWTRYKSKYLIDFTNELTRE 524
>gnl|CDD|233973 TIGR02680, TIGR02680, TIGR02680 family protein. Members of this
protein family belong to a conserved gene four-gene
neighborhood found sporadically in a phylogenetically
broad range of bacteria: Nocardia farcinica,
Symbiobacterium thermophilum, and Streptomyces
avermitilis (Actinobacteria), Geobacillus kaustophilus
(Firmicutes), Azoarcus sp. EbN1 and Ralstonia
solanacearum (Betaproteobacteria). Proteins in this
family average over 1400 amino acids in length
[Hypothetical proteins, Conserved].
Length = 1353
Score = 31.3 bits (71), Expect = 1.4
Identities = 17/99 (17%), Positives = 35/99 (35%), Gaps = 13/99 (13%)
Query: 426 LREAEEKSIRV-REAREKAENEKKDKAARKKALIDMTTDQTQQGVMDSLLEALQTGSAF- 483
LR A+ + ++ R+ + + + ++ + + + + LEALQ A+
Sbjct: 271 LRSAQTQYDQLSRDLGRARDELETAREEERELDARTEALEREADALRTRLEALQGSPAYQ 330
Query: 484 ----------TREQRRKRQND-RPMGAERRAQLNRSRSR 511
E + D R E ++L R R
Sbjct: 331 DAEELERARADAEALQAAAADARQAIREAESRLEEERRR 369
>gnl|CDD|153340 cd07656, F-BAR_srGAP, The F-BAR (FES-CIP4 Homology and
Bin/Amphiphysin/Rvs) domain of Slit-Robo GTPase
Activating Proteins. F-BAR domains are dimerization
modules that bind and bend membranes and are found in
proteins involved in membrane dynamics and actin
reorganization. Slit-Robo GTPase Activating Proteins
(srGAPs) are Rho GAPs that interact with Robo1, the
transmembrane receptor of Slit proteins. Slit proteins
are secreted proteins that control axon guidance and the
migration of neurons and leukocytes. Vertebrates contain
three isoforms of srGAPs, all of which are expressed
during embryonic and early development in the nervous
system but with different localization and timing.
srGAPs contain an N-terminal F-BAR domain, a Rho GAP
domain, and a C-terminal SH3 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.
Length = 241
Score = 30.8 bits (70), Expect = 1.6
Identities = 26/124 (20%), Positives = 52/124 (41%), Gaps = 18/124 (14%)
Query: 367 EVRQKITLLSNMSKNMMTLYGDLAE-------------FYTFDKNIYTLEEFFTDIKTFK 413
E R TL S N++ G ++E D+ + L E T +KT+
Sbjct: 82 ESRDHSTLSDIYSNNLVQRLGQMSEDLQRISKKCREIGSQLHDELLRVLNELQTAMKTYH 141
Query: 414 DSFYQAWQENIKLREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQQGVMDSL 473
++ KL+EAE++ E +E++ +K +++ K I+ ++ Q ++
Sbjct: 142 TYHAESKSAERKLKEAEKQ----EEKQEQSPEKKLERSRSSK-KIEKEVEKRQAKYSEAK 196
Query: 474 LEAL 477
L+
Sbjct: 197 LKCT 200
>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 = 31.2 bits (71), Expect = 1.7
Identities = 39/260 (15%), Positives = 91/260 (35%), Gaps = 10/260 (3%)
Query: 258 SGSRNGGAFGFEINFLTKLSSTKDIENKTTLLHYLVDTIEQKFPECLKFGDELLHVDRAA 317
G GG+ + L + +++E K L + +E+ E K +EL
Sbjct: 658 GGVITGGSAKTNSSILERRREIEELEEKIEELEEKIAELEKALAELRKELEELEEELEQL 717
Query: 318 RVSTDVIQNSIRQMENNIKNLETDIQNCKQ--APVANENDKFLEIMEPFAKEVRQKITLL 375
R + + I + ++ LE +++ ++ A ++ E + +E + + + L
Sbjct: 718 RKELEELSRQISALRKDLARLEAEVEQLEERIAQLSKELTELEAEIEELEERLEEAEEEL 777
Query: 376 SNMSKNMMTLYGDLAEFYT-FDKNIYTLEEFFTDIKTFKDSFYQAWQENIKL-REAEEKS 433
+ + L + + L+E ++ + + L R
Sbjct: 778 AEAEAEIEELEAQIEQLKEELKALREALDELRAELTLLNEEAANLRERLESLERRIAATE 837
Query: 434 IRVREAREKAENEKKDKAARKKALIDMTTDQTQQGVMDSLLEALQTGSAFTREQRRKRQN 493
R+ + E+ E +D + + ++ + ++S LEAL A E ++
Sbjct: 838 RRLEDLEEQIEELSEDIESLAAEIEELEELIEE---LESELEALLNERASLEEALALLRS 894
Query: 494 DRPMGAERRAQLNRSRSRNG 513
+ E +L S+
Sbjct: 895 EL---EELSEELRELESKRS 911
>gnl|CDD|235061 PRK02714, PRK02714, O-succinylbenzoate synthase; Provisional.
Length = 320
Score = 30.8 bits (70), Expect = 1.8
Identities = 20/49 (40%), Positives = 25/49 (51%), Gaps = 9/49 (18%)
Query: 139 SYEEVKLSILRCDTNILSGNV--LEQLISYLP-PPDQLQRLKELSGDYA 184
S EE K + CD LSG + +EQ P PPDQ + +LS DY
Sbjct: 175 SLEEAKRWLQLCD-RRLSGKIEFIEQ-----PLPPDQFDEMLQLSQDYQ 217
>gnl|CDD|236522 PRK09450, cyaA, adenylate cyclase; Provisional.
Length = 830
Score = 30.7 bits (70), Expect = 2.2
Identities = 17/80 (21%), Positives = 30/80 (37%), Gaps = 6/80 (7%)
Query: 284 NKTTLLHYLVDTIEQKFPECLKFGDELLHVDRAARVSTDVI---QNSIRQMENNIKNLET 340
N+ LH+ EQ + LK +H D A S +V Q+ + ++ L +
Sbjct: 605 NEVRTLHF---EGEQALLDALKTILGKMHQDAAPPPSVEVFCYSQHLRGLIRTRVQQLVS 661
Query: 341 DIQNCKQAPVANENDKFLEI 360
+ + E K L +
Sbjct: 662 ECIELRLGSTRQEPGKALRV 681
>gnl|CDD|206165 pfam13995, YebF, YebF-like protein. The YebF-like protein family
appears to be a group of colicin immunity proteins. As
well as YebF the family includes cmi, the colicin M
immunity protein. This domain family is found in
bacteria, and is approximately 80 amino acids in length.
The alignment contains two conserved cysteine residues
that form a disulphide bond in the solved structure.
Length = 89
Score = 28.1 bits (63), Expect = 3.4
Identities = 20/58 (34%), Positives = 27/58 (46%), Gaps = 10/58 (17%)
Query: 299 KFPECLKFGDELLHVDRAARVSTDVIQNSIRQMENNIKNLETDIQNCKQAPVANENDK 356
KFP C D L + AA+V D +QN I + +++ K L T PVA N
Sbjct: 4 KFPSC----DGLTYEQVAAQVKRDFLQNRIPRWDDDKKLLGTAK------PVAWVNVN 51
>gnl|CDD|241360 cd13206, FERM_C-lobe_PLEKHH1_PLEKHH2, Pleckstrin homology
domain-containing family H member FERM domain C-lobe.
PLEKHH1 and PLEKHH2 (also called PLEKHH1L) are thought
to function in phospholipid binding and signal
transduction. There are 3 Human PLEKHH genes: PLEKHH1,
PLEKHH2, and PLEKHH3. There are many isoforms, the
longest of which contain a FERM domain, a MyTH4 domain,
two PH domains, a peroximal domain, a vacuolar domain,
and a coiled coil stretch. The FERM domain has a
cloverleaf tripart structure (FERM_N, FERM_M, FERM_C/N,
alpha-, and C-lobe/A-lobe, B-lobe, C-lobe/F1, F2, F3).
The C-lobe/F3 within the FERM domain is part of the PH
domain family. The FERM domain is found in the
cytoskeletal-associated proteins such as ezrin, moesin,
radixin, 4.1R, and merlin. These proteins provide a link
between the membrane and cytoskeleton and are involved
in signal transduction pathways. The FERM domain is also
found in protein tyrosine phosphatases (PTPs) , the
tyrosine kinases FAK and JAK, in addition to other
proteins involved in signaling. This domain is
structurally similar to the PH and PTB domains and
consequently is capable of binding to both peptides and
phospholipids at different sites.
Length = 100
Score = 28.2 bits (63), Expect = 3.8
Identities = 8/15 (53%), Positives = 13/15 (86%)
Query: 244 KILELILLMGNYMNS 258
KILE+ LL+ +Y+N+
Sbjct: 83 KILEITLLIASYINA 97
>gnl|CDD|179385 PRK02224, PRK02224, chromosome segregation protein; Provisional.
Length = 880
Score = 30.0 bits (68), Expect = 4.1
Identities = 28/97 (28%), Positives = 40/97 (41%), Gaps = 5/97 (5%)
Query: 428 EAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQQGVMDSLLEALQTGSAFTREQ 487
EAEEK EA E+AE +++ A L ++ + +LL A+
Sbjct: 552 EAEEKREAAAEAEEEAEEAREEVAELNSKLAELKERIESLERIRTLLAAIADAEDEIERL 611
Query: 488 RRKRQNDRPMGAERRAQLNRSRSRNGIVITRELSNEV 524
R KR+ + ERR +L R R REL E
Sbjct: 612 REKREALAELNDERRERLAEKRER-----KRELEAEF 643
>gnl|CDD|235250 PRK04195, PRK04195, replication factor C large subunit;
Provisional.
Length = 482
Score = 29.9 bits (68), Expect = 4.1
Identities = 22/104 (21%), Positives = 40/104 (38%), Gaps = 3/104 (2%)
Query: 363 PFAKEVRQKITLLSNMSKNMMTLYGDLAEFYTFDKNIYTLEEFFTDIKTFKDSFYQAWQE 422
K R+ + LS + K+ L LA F + EF T K + ++
Sbjct: 362 SKRKVRREVLPFLSIIFKHNPELAARLAAFLELTEE---EIEFLTGSKKATKKIKKIVEK 418
Query: 423 NIKLREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQ 466
K RE E+K + + K + E++++ KK ++
Sbjct: 419 AEKKREEEKKEKKKKAFAGKKKEEEEEEEKEKKEEEKEEEEEEA 462
>gnl|CDD|222366 pfam13764, E3_UbLigase_R4, E3 ubiquitin-protein ligase UBR4. This
is a family of E## ubiquitin ligase enzymes.
Length = 794
Score = 30.0 bits (68), Expect = 4.1
Identities = 12/45 (26%), Positives = 21/45 (46%), Gaps = 2/45 (4%)
Query: 426 LREAEEKSIRVREAREKAENEKKDKA--ARKKALIDMTTDQTQQG 468
L E E + ++ E R++ EK+ A R+K L + + G
Sbjct: 400 LAEKEGVAKKIDEVRDETRAEKRRLAMAMREKQLQALGMRTSSGG 444
>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 = 29.5 bits (67), Expect = 5.5
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 7/35 (20%)
Query: 163 LISYLPPP-------DQLQRLKELSGDYANLTEAE 190
+I +L PP +L L+EL +Y +
Sbjct: 485 IIDHLTPPLTRAGLYGELAELEELIDEYREADGLD 519
>gnl|CDD|161783 TIGR00237, xseA, exodeoxyribonuclease VII, large subunit. This
family consist of exodeoxyribonuclease VII, large
subunit XseA which catalyses exonucleolytic cleavage in
either the 5'->3' or 3'->5' direction to yield
5'-phosphomononucleotides. Exonuclease VII consists of
one large subunit and four small subunits [DNA
metabolism, Degradation of DNA].
Length = 432
Score = 29.0 bits (65), Expect = 6.1
Identities = 19/84 (22%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 437 REAREKAENEKKDKAARKKALIDMTTDQT--QQGVMDSLLEALQTGSAFTREQRRKRQND 494
+ A ++ + EK +K RK+A ++ ++T ++ + L R Q R Q +
Sbjct: 301 KLALQQLQFEKLEK--RKQAALNKQLERTRQKKTRLTKRLTQTNPSPQILRAQTRTEQLN 358
Query: 495 RPMGAERRAQLNRSRSRNGIVITR 518
R + A + AQ N + G ++ +
Sbjct: 359 RRLNALKNAQANLKLPQFGTLVGK 382
>gnl|CDD|184038 PRK13410, PRK13410, molecular chaperone DnaK; Provisional.
Length = 668
Score = 29.2 bits (66), Expect = 6.8
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 12/64 (18%)
Query: 426 LREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQQGVMDSLLEALQTGSAFTR 485
++EAE K+ R RE+ E K R LI Q ++ + D+ AL+ G F
Sbjct: 511 IQEAEAKADEDRRRRERIE-----KRNRALTLIA----QAERRLRDA---ALEFGPYFAE 558
Query: 486 EQRR 489
QRR
Sbjct: 559 RQRR 562
>gnl|CDD|218312 pfam04889, Cwf_Cwc_15, Cwf15/Cwc15 cell cycle control protein.
This family represents Cwf15/Cwc15 (from
Schizosaccharomyces pombe and Saccharomyces cerevisiae
respectively) and their homologues. The function of
these proteins is unknown, but they form part of the
spliceosome and are thus thought to be involved in mRNA
splicing.
Length = 241
Score = 28.5 bits (64), Expect = 6.8
Identities = 11/45 (24%), Positives = 19/45 (42%)
Query: 422 ENIKLREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQ 466
E IK AEEK E + E ++++ L++ + D
Sbjct: 152 EKIKKERAEEKEREEEEKAAEEEKAREEEILTGNPLLNTSGDFKV 196
>gnl|CDD|234017 TIGR02794, tolA_full, TolA protein. TolA couples the inner
membrane complex of itself with TolQ and TolR to the
outer membrane complex of TolB and OprL (also called
Pal). Most of the length of the protein consists of
low-complexity sequence that may differ in both length
and composition from one species to another,
complicating efforts to discriminate TolA (the most
divergent gene in the tol-pal system) from paralogs such
as TonB. Selection of members of the seed alignment and
criteria for setting scoring cutoffs are based largely
conserved operon struction. //The Tol-Pal complex is
required for maintaining outer membrane integrity. Also
involved in transport (uptake) of colicins and
filamentous DNA, and implicated in pathogenesis.
Transport is energized by the proton motive force. TolA
is an inner membrane protein that interacts with
periplasmic TolB and with outer membrane porins ompC,
phoE and lamB [Transport and binding proteins, Other,
Cellular processes, Pathogenesis].
Length = 346
Score = 29.0 bits (65), Expect = 7.0
Identities = 17/40 (42%), Positives = 23/40 (57%), Gaps = 2/40 (5%)
Query: 418 QAWQENIKLREAEEKSIRVREAREKAENEKKDKA-ARKKA 456
QA +E + A E + EA++KAE E K KA A+ KA
Sbjct: 151 QAEEEAKA-KAAAEAKKKAAEAKKKAEAEAKAKAEAKAKA 189
>gnl|CDD|221887 pfam12998, ING, Inhibitor of growth proteins N-terminal
histone-binding. Histones undergo numerous
post-translational modifications, including acetylation
and methylation, at residues which are then probable
docking sites for various chromatin remodelling
complexes. Inhibitor of growth proteins (INGs)
specifically bind to residues that have been thus
modified. INGs carry a well-characterized C-terminal
PHD-type zinc-finger domain, binding with lysine
4-tri-methylated histone H3 (H3K4me3), as well as this
N-terminal domain that binds unmodified H3 tails.
Although these two regions can bind histones
independently, together they increase the apparent
association of the ING for the H3 tail.
Length = 104
Score = 27.5 bits (62), Expect = 7.6
Identities = 7/45 (15%), Positives = 24/45 (53%), Gaps = 3/45 (6%)
Query: 294 DTIEQKFPECLKFGDELLHVDRAARVSTDVIQNSIRQMENNIKNL 338
I+++ + + DE + + A + +++ IR+++ +++ L
Sbjct: 63 KRIQEELIKAQELQDEKVQL---ANQAYELVDKHIRRLDKDLEKL 104
>gnl|CDD|162866 TIGR02460, osmo_MPGsynth, mannosyl-3-phosphoglycerate synthase.
This family consists of examples of
mannosyl-3-phosphoglycerate synthase (MPGS), which
together mannosyl-3-phosphoglycerate phosphatase (MPGP)
comprises a two-step pathway for mannosylglycerate
biosynthesis. Mannosylglycerate is a compatible solute
that tends to be restricted to extreme thermophiles of
archaea and bacteria. Note that in Rhodothermus marinus,
this pathway is one of two; the other is condensation of
GDP-mannose with D-glycerate by mannosylglycerate
synthase.
Length = 381
Score = 28.6 bits (64), Expect = 7.9
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 7/86 (8%)
Query: 170 PDQLQRLKELSGDYANLTEAEQF--AVTIAEIKRLLPRLKSMHFKQHFQEMYTDCHKNII 227
P +L + E G + + E + F + I +I+ L P +H EM I
Sbjct: 271 PYELVYILERFGGWLPVEEKDVFDQGIEIFQIETLNPHFHEEKGDEHIAEMLLLSLATIY 330
Query: 228 NGKQACEEVKQSKKLAKILELILLMG 253
+ K A EEV++ IL+ + +G
Sbjct: 331 HSKLATEEVRKR-----ILDDLRDLG 351
>gnl|CDD|181238 PRK08124, PRK08124, flagellar motor protein MotA; Validated.
Length = 263
Score = 28.4 bits (64), Expect = 8.4
Identities = 18/54 (33%), Positives = 30/54 (55%), Gaps = 7/54 (12%)
Query: 135 LKHYSYEEVKLS--ILRCDTNILSGN---VLEQ-LISYLPPPDQLQRLKELSGD 182
LK S EE++L I+ I GN V+E+ L+ YL P ++ ++L+E +
Sbjct: 208 LKRKSKEEIELKYIIIEGVLAIQEGNAPRVIEEKLLGYLSPKER-KKLEEGAEK 260
>gnl|CDD|181202 PRK08027, flgL, flagellar hook-associated protein FlgL; Reviewed.
Length = 317
Score = 28.6 bits (64), Expect = 8.4
Identities = 12/54 (22%), Positives = 28/54 (51%)
Query: 460 MTTDQTQQGVMDSLLEALQTGSAFTREQRRKRQNDRPMGAERRAQLNRSRSRNG 513
M Q +G+ +S E ++ G + +R +D P+ A + L++++++N
Sbjct: 7 MMYQQNMRGITNSQAEWMKYGEQMSTGKRVVNPSDDPIAASQAVVLSQAQAQNS 60
>gnl|CDD|190198 pfam02045, CBFB_NFYA, CCAAT-binding transcription factor
(CBF-B/NF-YA) subunit B.
Length = 57
Score = 26.1 bits (58), Expect = 9.3
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 434 IRVREAREKAENEKKDKAARKKAL 457
+R R+AR K E E K +RK L
Sbjct: 15 LRRRQARAKLEAENKLIKSRKPYL 38
>gnl|CDD|132514 TIGR03474, incFII_RepA, incFII family plasmid replication initiator
RepA. Members of this protein are the plasmid
replication initiator RepA of incFII (plasmid
incompatibility group F-II) plasmids. R1 and R100 are
plasmids in this group. Immediately upstream of repA is
found tap, a leader peptide of about 24 amino acids,
often not assigned as a gene in annotated plasmid
sequences. Note that other, non-homologous plasmid
replication proteins share the gene symbol (repA) and
similar names (plasmid replication protein RepA).
Length = 275
Score = 28.5 bits (63), Expect = 9.9
Identities = 31/125 (24%), Positives = 49/125 (39%), Gaps = 26/125 (20%)
Query: 407 TDIKTFKDSFYQAWQENIKLREAEEKSIRVREAREKAENEKKDKAARKKALIDMTTDQTQ 466
TDI TF + + A L +E R +R + EN+++ K +D
Sbjct: 138 TDI-TFTPALFSA------LDVSEVAVAAARRSRVEWENKQRKKQGLDTLEMD------- 183
Query: 467 QGVMDSLLEALQTGSAFTREQRRKRQNDRPMGAERRAQLNR--SRSRNGIV--ITRELSN 522
E + F RE+ R Q +R +RA+ R R R I + R+L+
Sbjct: 184 --------ELIAKAWRFVRERFRSYQTERKSHGIKRARARRDADRERQDIETLVKRQLTR 235
Query: 523 EVLIG 527
E+ G
Sbjct: 236 EIAEG 240
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
0.315 0.131 0.368
Gapped
Lambda K H
0.267 0.0709 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 26,603,979
Number of extensions: 2599104
Number of successful extensions: 3529
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3438
Number of HSP's successfully gapped: 144
Length of query: 529
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 428
Effective length of database: 6,457,848
Effective search space: 2763958944
Effective search space used: 2763958944
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 61 (27.3 bits)