RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16313
(1018 letters)
>gnl|CDD|214540 smart00164, TBC, Domain in Tre-2, BUB2p, and Cdc16p. Probable
Rab-GAPs. Widespread domain present in Gyp6 and Gyp7,
thereby giving rise to the notion that it performs a
GTP-activator activity on Rab-like GTPases.
Length = 216
Score = 162 bits (412), Expect = 2e-45
Identities = 69/221 (31%), Positives = 98/221 (44%), Gaps = 20/221 (9%)
Query: 347 YYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLLKRGQMVGD 406
G+ PSLR VVWK +LN P S +D + LLK + D
Sbjct: 1 VRKGVPPSLRGVVWKLLLNAQPMDTS----------------ADKDLYSRLLK--ETAPD 42
Query: 407 LAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVSYCQGMSDLASP 466
+ + KD+ RT H F+ + SL +L YAL +P V YCQGM+ LA+P
Sbjct: 43 DKSIVHQIEKDLRRTFPEHSFFQDKE-GPGQESLRRVLKAYALYNPEVGYCQGMNFLAAP 101
Query: 467 LLVTMSNEAHAYICFCALMRRLGRNFLVDGITMTQRFQHLADGL-EYYHPKFYEYLKSHQ 525
LL+ M +E A+ C LM R G NF + ++ Q D L + Y P Y++LK
Sbjct: 102 LLLVMEDEEDAFWCLVKLMERYGPNFYLPDMSGLQLDLLQLDRLVKEYDPDLYKHLKDLG 161
Query: 526 ADDLLYCYRWLLLEMKREFAFNDALIMLEVMWSSLPPNPPQ 566
LY RW L RE L + +V+++ +
Sbjct: 162 ITPSLYALRWFLTLFARELPLEIVLRIWDVLFAEGSDFLFR 202
Score = 41.5 bits (98), Expect = 0.001
Identities = 10/46 (21%), Positives = 17/46 (36%)
Query: 3 LEKEKADDLLYCYRWLLLEMKREFAFNDALIMLEVMWSSLPPNPPQ 48
L+ LY RW L RE L + +V+++ +
Sbjct: 157 LKDLGITPSLYALRWFLTLFARELPLEIVLRIWDVLFAEGSDFLFR 202
>gnl|CDD|215997 pfam00566, RabGAP-TBC, Rab-GTPase-TBC domain. Identification of a
TBC domain in GYP6_YEAST and GYP7_YEAST, which are
GTPase activator proteins of yeast Ypt6 and Ypt7,
implies that these domains are GTPase activator proteins
of Rab-like small GTPases.
Length = 206
Score = 138 bits (350), Expect = 4e-37
Identities = 53/206 (25%), Positives = 90/206 (43%), Gaps = 24/206 (11%)
Query: 353 PSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLLKRGQMVGDLAYVTG 412
SLR VWK +L + S+ L+ ++
Sbjct: 1 DSLRGEVWKLLLGN-------LSESKQRDSVSQYSKLLKLEDSPDEEQ------------ 41
Query: 413 MVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVSYCQGMSDLASPLLVTMS 472
+ KDV RT HH F+ + L IL Y++ +P V YCQGM+ +A+PLL+ +
Sbjct: 42 -IEKDVPRTFPHHFFF---KNGEGQQQLRRILKAYSIYNPDVGYCQGMNFIAAPLLLVVL 97
Query: 473 NEAHAYICFCALMRRLGRNFLVDGITMTQRFQHLADGL-EYYHPKFYEYLKSHQADDLLY 531
+E A+ CF +L+ L R+F + QR ++ + L + + P+ Y++L+ D L+
Sbjct: 98 DEEEAFWCFVSLLEYLLRDFFLPSFPGLQRDLYVFEELLKKHDPELYKHLQKLGLDPSLF 157
Query: 532 CYRWLLLEMKREFAFNDALIMLEVMW 557
+W L RE L + ++
Sbjct: 158 ASKWFLTLFARELPLETVLRLWDLFL 183
Score = 32.3 bits (74), Expect = 0.84
Identities = 9/37 (24%), Positives = 15/37 (40%)
Query: 3 LEKEKADDLLYCYRWLLLEMKREFAFNDALIMLEVMW 39
L+K D L+ +W L RE L + ++
Sbjct: 147 LQKLGLDPSLFASKWFLTLFARELPLETVLRLWDLFL 183
>gnl|CDD|227535 COG5210, COG5210, GTPase-activating protein [General function
prediction only].
Length = 496
Score = 106 bits (266), Expect = 8e-24
Identities = 55/225 (24%), Positives = 94/225 (41%), Gaps = 20/225 (8%)
Query: 336 IIQSRELRTVIYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWK 395
+Q +LR +I G I LR VW+ +L + + E E
Sbjct: 199 PVQLSKLRELIRKG-IPNELRGDVWEFLLGIGFDLDKNPGLYERLLNLHREAKIPTQEII 257
Query: 396 DLLKRGQMVGDLAYVTGMVRKDVLRTDRHHVFYAGADDNCNVISLFNILTTYALNHPAVS 455
+ KD+ RT + + + + +L +L Y+L +P V
Sbjct: 258 S----------------QIEKDLSRTFPDNSLF-QTEISIRAENLRRVLKAYSLYNPEVG 300
Query: 456 YCQGMSDLASPLLVTMSNEAHAYICFCALMRRLG--RNFLVDGITMTQRFQHLADGLEYY 513
Y QGM+ LA+PLL+ + +E A+ C L++ G FL + + + + L D +E
Sbjct: 301 YVQGMNFLAAPLLLVLESEEQAFWCLVKLLKNYGLPGYFLKNLSGLHRDLKVLDDLVEEL 360
Query: 514 HPKFYEYLKSHQADDLLYCYRWLLLEMKREFAFNDALIMLEVMWS 558
P+ YE+L L++ +RW L REF AL + + ++
Sbjct: 361 DPELYEHLLREGVVLLMFAFRWFLTLFVREFPLEYALRIWDCLFL 405
>gnl|CDD|99716 cd05992, PB1, The PB1 domain is a modular domain mediating specific
protein-protein interactions which play a role in many
critical cell processes, such as osteoclastogenesis,
angiogenesis, early cardiovascular development, and cell
polarity. A canonical PB1-PB1 interaction, which
involves heterodimerization of two PB1 domain, is
required for the formation of macromolecular signaling
complexes ensuring specificity and fidelity during
cellular signaling. The interaction between two PB1
domain depends on the type of PB1. There are three types
of PB1 domains: type I which contains an OPCA motif,
acidic aminoacid cluster, type II which contains a basic
cluster, and type I/II which contains both an OPCA motif
and a basic cluster. Interactions of PB1 domains with
other protein domains have been described as a
noncanonical PB1-interactions. The PB1 domain module is
conserved in amoebas, fungi, animals, and plants.
Length = 81
Score = 36.5 bits (85), Expect = 0.006
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 4/70 (5%)
Query: 161 RKFSVDPQITSYEVLYSLLAKAFDVRKEFSICYRVLDDCNQETFLPLLSDYELDAAIQNA 220
R+F V + S+E L S +A+ F + S + D+ + + SD +L+ AI+ A
Sbjct: 12 RRFVVVSRSISFEDLRSKIAEKFGLDA-VSFKLKYPDE--DGDLVTISSDEDLEEAIEEA 68
Query: 221 SDP-CLCLRI 229
LR+
Sbjct: 69 RRSGSKKLRL 78
>gnl|CDD|223910 COG0840, Tar, Methyl-accepting chemotaxis protein [Cell motility
and secretion / Signal transduction mechanisms].
Length = 408
Score = 32.7 bits (74), Expect = 1.1
Identities = 13/74 (17%), Positives = 26/74 (35%), Gaps = 4/74 (5%)
Query: 860 NDMTQSYSSTTSGADSIHSGDSSQQIREVAHSSFESDNDMTQSYSSTTSGADSIHS--GD 917
+++++ A + + +VA E + + +
Sbjct: 176 EELSETVKEVAFNAKEAA--ALASEASQVAEEGGEEVRQAVEQMQEIAEELAEVVKKLSE 233
Query: 918 SSQQIREVAHVINS 931
SSQ+I E+ VINS
Sbjct: 234 SSQEIEEITSVINS 247
>gnl|CDD|224117 COG1196, Smc, Chromosome segregation ATPases [Cell division and
chromosome partitioning].
Length = 1163
Score = 32.8 bits (75), Expect = 1.1
Identities = 18/102 (17%), Positives = 33/102 (32%), Gaps = 21/102 (20%)
Query: 715 KIVRNLNEFLNF--SKKIALNREIREAEDHLVKKIESMNSQV-----------KLLVESS 761
L + L +K L E+RE E L + E + +L VE
Sbjct: 870 AEKEELEDELKELEEEKEELEEELRELESELAELKEEIEKLRERLEELEAKLERLEVELP 929
Query: 762 PEDDDSSEYFPMTCSITQELRL--------ELENLNRNVLQD 795
+++ E + T E + L +N +++
Sbjct: 930 ELEEELEEEYEDTLETELEREIERLEEEIEALGPVNLRAIEE 971
>gnl|CDD|152622 pfam12187, VirArc_Nuclease, Viral/Archaeal nuclease. This family
of proteins is found in archaea and viruses. Proteins in
this family are typically between 211 and 244 amino
acids in length. These proteins are nucleases from
fusseloviruses and sulfolobus archaea.
Length = 190
Score = 31.7 bits (71), Expect = 1.2
Identities = 16/55 (29%), Positives = 25/55 (45%), Gaps = 3/55 (5%)
Query: 346 IYYGGIEPSLRRVVWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDT-WKDLLK 399
I+Y E L+ + ILN+ +G K+ E YY + T WK+L +
Sbjct: 135 IHYNDREDKLKCISALQILNLEKQGKIKKDEFERD--AKSRYYIIPLTRWKNLTE 187
>gnl|CDD|133044 cd06422, NTP_transferase_like_1, NTP_transferase_like_1 is a member
of the nucleotidyl transferase family. This is a
subfamily of nucleotidyl transferases. Nucleotidyl
transferases transfer nucleotides onto phosphosugars.
The activated sugars are precursors for synthesis of
lipopolysaccharide, glycolipids and polysaccharides.
Other subfamilies of nucleotidyl transferases include
Alpha-D-Glucose-1-Phosphate Cytidylyltransferase,
Mannose-1-phosphate guanyltransferase, and
Glucose-1-phosphate thymidylyltransferase.
Length = 221
Score = 30.6 bits (70), Expect = 2.8
Identities = 20/107 (18%), Positives = 35/107 (32%), Gaps = 29/107 (27%)
Query: 303 LSYMEDNMAALYL---PPRSPLNDTEFRQFLDPVGQIIQSRELRTVIY-YGGIEPSLRRV 358
M+ + L L P + + D F LD G++ + + + GI
Sbjct: 121 AWRMDALLLLLPLVRNPGHNGVGD--F--SLDADGRLRRGGGGAVAPFTFTGI------- 169
Query: 359 VWKHILNVYPEGMSGKERMEYTRRKSEEYYKLRDTWKDLLKRGQMVG 405
IL+ PE +G + L W + G++ G
Sbjct: 170 ---QILS--PELFAGIP---------PGKFSLNPLWDRAIAAGRLFG 202
>gnl|CDD|191716 pfam07263, DMP1, Dentin matrix protein 1 (DMP1). This family
consists of several mammalian dentin matrix protein 1
(DMP1) sequences. The dentin matrix acidic
phosphoprotein 1 (DMP1) gene has been mapped to human
chromosome 4q21. DMP1 is a bone and teeth specific
protein initially identified from mineralised dentin.
DMP1 is primarily localised in the nuclear compartment
of undifferentiated osteoblasts. In the nucleus, DMP1
acts as a transcriptional component for activation of
osteoblast-specific genes like osteocalcin. During the
early phase of osteoblast maturation, Ca(2+) surges into
the nucleus from the cytoplasm, triggering the
phosphorylation of DMP1 by a nuclear isoform of casein
kinase II. This phosphorylated DMP1 is then exported out
into the extracellular matrix, where it regulates
nucleation of hydroxyapatite. DMP1 is a unique molecule
that initiates osteoblast differentiation by
transcription in the nucleus and orchestrates
mineralised matrix formation extracellularly, at later
stages of osteoblast maturation. The DMP1 gene has been
found to be ectopically expressed in lung cancer
although the reason for this is unknown.
Length = 514
Score = 30.4 bits (68), Expect = 5.6
Identities = 27/92 (29%), Positives = 47/92 (51%), Gaps = 4/92 (4%)
Query: 833 DETKDSALPESCSAHSIASNKSSF---ESDNDMTQSYSSTTSGADSIHSGDSSQQIREVA 889
++ +DS E S + +S++S ++D++ +S SS+ +S +SS Q +
Sbjct: 371 EDQEDSESSEEDSLDTPSSSESQSTEEQADSESNESLSSSEESPESTEDENSSSQEGLQS 430
Query: 890 HS-SFESDNDMTQSYSSTTSGADSIHSGDSSQ 920
HS S ES + +QS + S D S DSS+
Sbjct: 431 HSASTESRSQESQSEQDSRSEEDDSDSQDSSR 462
>gnl|CDD|163244 TIGR03385, CoA_CoA_reduc, CoA-disulfide reductase. Members of this
protein family are CoA-disulfide reductase (EC
1.8.1.14), as characterized in Staphylococcus aureus,
Pyrococcus horikoshii, and Borrelia burgdorferi, and
inferred in several other species on the basis of high
levels of CoA and an absence of glutathione as a
protective thiol [Cellular processes, Detoxification].
Length = 427
Score = 30.1 bits (68), Expect = 6.5
Identities = 13/38 (34%), Positives = 20/38 (52%), Gaps = 1/38 (2%)
Query: 958 VLCQHSEHIMNHHMDYNEMAIYFDKMVRKHNVHKVLNE 995
L SE I+N D EM ++ ++KH ++ LNE
Sbjct: 164 TLIHRSERILNKLFDE-EMNQIVEEELKKHEINLRLNE 200
>gnl|CDD|236798 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 30.0 bits (68), Expect = 8.2
Identities = 17/84 (20%), Positives = 34/84 (40%), Gaps = 13/84 (15%)
Query: 732 LNREIREAED----HLVKKIESMNSQVKLLVESSPEDDDSSEY------FPMTCSITQEL 781
+ +E+ +A+ + +E++ S + L E + + +Y FP ++ EL
Sbjct: 28 ITQELEQAKAAKTPAQAEIVEALQSALNWLEERKGSLERAKQYQQVIDNFP---KLSAEL 84
Query: 782 RLELENLNRNVLQDPEPQLADDIE 805
R +L N P D +E
Sbjct: 85 RQQLNNERDEPRSVPPNMSTDALE 108
>gnl|CDD|236754 PRK10760, PRK10760, murein hydrolase B; Provisional.
Length = 359
Score = 29.7 bits (67), Expect = 8.6
Identities = 20/77 (25%), Positives = 28/77 (36%), Gaps = 15/77 (19%)
Query: 934 SRVGLPPPNEFGGGNPFLMFLCISVLCQHSEHIMNHHMDYNEMAIYF-DKMVRKHN---- 988
GG + QH+ M N A F DKMV KH
Sbjct: 25 PTETATTTGTPSGG--------FLLEPQHNVMQMGGDFANNPNAQQFIDKMVNKHGFDRQ 76
Query: 989 -VHKVLNEARKRYESYL 1004
+H++L++A KR + L
Sbjct: 77 QLHEILSQA-KRLDWVL 92
>gnl|CDD|203401 pfam06179, Med22, Surfeit locus protein 5 subunit 22 of Mediator
complex. This family consists of several eukaryotic
Surfeit locus protein 5 (SURF5) sequences. The human
Surfeit locus has been mapped on chromosome 9q34.1. The
locus includes six tightly clustered housekeeping genes
(Surf1-6), and the gene organisation is similar in
human, mouse and chicken Surfeit locus. The Med22
subunit of Mediator complex is part of the essential
core head region.
Length = 108
Score = 28.0 bits (63), Expect = 8.9
Identities = 20/106 (18%), Positives = 40/106 (37%), Gaps = 19/106 (17%)
Query: 667 SMVQKFTQLTKDNIHKSLEKINSQGTEYANHVLNRRGSLKMQTAATS--------TKIVR 718
S++ FT++ I E + + + +M+ A K+ R
Sbjct: 11 SLLDNFTEI-----------IKLAKNENKDKTVAAQEVYEMEVRAAQLVRAVEDLLKLTR 59
Query: 719 NLNEFLNFSKKIALNREIREAEDHLVKKIESMNSQVKLLVESSPED 764
+ EF + LN EI++ E+ + E + + L+E E+
Sbjct: 60 EIKEFWILNDFSPLNEEIKQQEEEFESEQEETDQLLAELLEKLSEE 105
>gnl|CDD|214599 smart00283, MA, Methyl-accepting chemotaxis-like domains
(chemotaxis sensory transducer). Thought to undergo
reversible methylation in response to attractants or
repellants during bacterial chemotaxis.
Length = 262
Score = 29.2 bits (66), Expect = 9.3
Identities = 17/102 (16%), Positives = 38/102 (37%), Gaps = 9/102 (8%)
Query: 833 DETKDSALPESCSAHSIASNKSSFESDNDMTQSYSSTTSGADSI--HSGDSSQQIREVAH 890
+E A ++ +A E +++ S + AD I + +++ E
Sbjct: 7 EEIAAGAEEQAEELEELA------ERMEELSASIEEVAANADEIAATAQSAAEAAEEGRE 60
Query: 891 SSFESDNDMTQSYSSTTSGADSIHS-GDSSQQIREVAHVINS 931
+ ++ M Q ++ +SS +I E+ VI+
Sbjct: 61 AVEDAITAMDQIREVVEEAVSAVEELEESSDEIGEIVSVIDD 102
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
0.317 0.131 0.385
Gapped
Lambda K H
0.267 0.0742 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 50,137,357
Number of extensions: 4815566
Number of successful extensions: 4239
Number of sequences better than 10.0: 1
Number of HSP's gapped: 4225
Number of HSP's successfully gapped: 36
Length of query: 1018
Length of database: 10,937,602
Length adjustment: 107
Effective length of query: 911
Effective length of database: 6,191,724
Effective search space: 5640660564
Effective search space used: 5640660564
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 (21.7 bits)
S2: 64 (28.4 bits)