RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy13883
(908 letters)
>gnl|CDD|219251 pfam06984, MRP-L47, Mitochondrial 39-S ribosomal protein L47
(MRP-L47). This family represents the N-terminal region
(approximately 8 residues) of the eukaryotic
mitochondrial 39-S ribosomal protein L47 (MRP-L47).
Mitochondrial ribosomal proteins (MRPs) are the
counterparts of the cytoplasmic ribosomal proteins, in
that they fulfil similar functions in protein
biosynthesis. However, they are distinct in number,
features and primary structure.
Length = 87
Score = 95.2 bits (237), Expect = 1e-23
Identities = 44/72 (61%), Positives = 52/72 (72%), Gaps = 1/72 (1%)
Query: 328 LNEFFDSPKNFG-AEQVRVGRSWRKEELRVKSSSDLHKLWYVLLKEQNMLKTMEHECKEK 386
L EFFD KN+ +V+VGR+W EELR KS +DLHKLWYVLLKE+NML TMEHE
Sbjct: 1 LEEFFDDKKNWPPENEVKVGRAWAAEELRHKSFNDLHKLWYVLLKEKNMLLTMEHELLRN 60
Query: 387 FIVFPNPERIDK 398
V P+PER+ K
Sbjct: 61 QEVMPSPERLKK 72
Score = 72.1 bits (177), Expect = 2e-15
Identities = 29/47 (61%), Positives = 36/47 (76%)
Query: 425 YVLLKEQNMLKTMEHECKEKFIVFPNPERIDKVQESMENLEDVIRER 471
YVLLKE+NML TMEHE V P+PER+ KV+ SMEN++ V+RER
Sbjct: 41 YVLLKEKNMLLTMEHELLRNQEVMPSPERLKKVKISMENIKTVLRER 87
Score = 57.4 bits (139), Expect = 2e-10
Identities = 22/39 (56%), Positives = 28/39 (71%)
Query: 1 MLKTMEHECKEKFIVFPNPERIDKVQESMENLEDVIRER 39
ML TMEHE V P+PER+ KV+ SMEN++ V+RER
Sbjct: 49 MLLTMEHELLRNQEVMPSPERLKKVKISMENIKTVLRER 87
>gnl|CDD|221315 pfam11921, DUF3439, Domain of unknown function (DUF3439). This
presumed domain is functionally uncharacterized. This
domain is found in eukaryotes. This domain is typically
between 46 to 94 amino acids in length. This domain is
found associated with pfam01462, pfam00560.
Length = 122
Score = 39.2 bits (91), Expect = 0.002
Identities = 23/39 (58%), Positives = 23/39 (58%), Gaps = 5/39 (12%)
Query: 650 GKSVFSKAKAAKTTTTTTTTTTTTTTTTNYLLPIT--MS 686
GK V S TTTTTTTTTT TTTT LP T MS
Sbjct: 37 GKPVRSIICPTTTTTTTTTTTTMPTTTT---LPTTTKMS 72
>gnl|CDD|216513 pfam01456, Mucin, Mucin-like glycoprotein. This family of
trypanosomal proteins resemble vertebrate mucins. The
protein consists of three regions. The N and C terminii
are conserved between all members of the family, whereas
the central region is not well conserved and contains a
large number of threonine residues which can be
glycosylated. Indirect evidence suggested that these
genes might encode the core protein of parasite mucins,
glycoproteins that were proposed to be involved in the
interaction with, and invasion of, mammalian host cells.
This family contains an N-terminal signal peptide.
Length = 143
Score = 37.5 bits (86), Expect = 0.007
Identities = 14/23 (60%), Positives = 17/23 (73%)
Query: 656 KAKAAKTTTTTTTTTTTTTTTTN 678
+++ TTTTTT TTTTTTTT
Sbjct: 42 QSQTTTTTTTTTPPTTTTTTTTT 64
Score = 36.4 bits (83), Expect = 0.021
Identities = 15/24 (62%), Positives = 16/24 (66%)
Query: 655 SKAKAAKTTTTTTTTTTTTTTTTN 678
S+ TTTT TTTTTTTTTT
Sbjct: 43 SQTTTTTTTTTPPTTTTTTTTTTT 66
Score = 36.4 bits (83), Expect = 0.022
Identities = 16/23 (69%), Positives = 16/23 (69%)
Query: 662 TTTTTTTTTTTTTTTTNYLLPIT 684
TTTTTTT TTTTTTT IT
Sbjct: 47 TTTTTTTPPTTTTTTTTTTTTIT 69
Score = 36.0 bits (82), Expect = 0.030
Identities = 16/31 (51%), Positives = 18/31 (58%)
Query: 652 SVFSKAKAAKTTTTTTTTTTTTTTTTNYLLP 682
+ + TT TTTTTTTTTTTTT P
Sbjct: 62 TTTTTTITTTTTKTTTTTTTTTTTTTTTEAP 92
Score = 35.2 bits (80), Expect = 0.049
Identities = 15/26 (57%), Positives = 17/26 (65%)
Query: 652 SVFSKAKAAKTTTTTTTTTTTTTTTT 677
+V A+ TTTTTTTTT TTTT
Sbjct: 34 AVVEAAEGQSQTTTTTTTTTPPTTTT 59
Score = 34.5 bits (78), Expect = 0.094
Identities = 18/30 (60%), Positives = 18/30 (60%)
Query: 658 KAAKTTTTTTTTTTTTTTTTNYLLPITMSR 687
KTTTTTTTTTTTTTTT T S
Sbjct: 71 TTTKTTTTTTTTTTTTTTTEAPSKNTTTSE 100
Score = 33.3 bits (75), Expect = 0.21
Identities = 14/23 (60%), Positives = 14/23 (60%)
Query: 662 TTTTTTTTTTTTTTTTNYLLPIT 684
TT TTTTTTTTTTTT
Sbjct: 52 TTPPTTTTTTTTTTTTITTTTTK 74
Score = 32.9 bits (74), Expect = 0.32
Identities = 15/51 (29%), Positives = 21/51 (41%)
Query: 652 SVFSKAKAAKTTTTTTTTTTTTTTTTNYLLPITMSRYDSCPRYLNMAIICT 702
+ + TTTTTTTTT TTTTT T + + + +
Sbjct: 49 TTTTTPPTTTTTTTTTTTTITTTTTKTTTTTTTTTTTTTTTEAPSKNTTTS 99
Score = 31.8 bits (71), Expect = 0.83
Identities = 15/28 (53%), Positives = 17/28 (60%)
Query: 650 GKSVFSKAKAAKTTTTTTTTTTTTTTTT 677
G+S + T TTTTTTTTTTTT
Sbjct: 41 GQSQTTTTTTTTTPPTTTTTTTTTTTTI 68
>gnl|CDD|115579 pfam06933, SSP160, Special lobe-specific silk protein SSP160. This
family consists of several special lobe-specific silk
protein SSP160 sequences which appear to be specific to
Chironomus (Midge) species.
Length = 758
Score = 37.8 bits (87), Expect = 0.028
Identities = 15/19 (78%), Positives = 17/19 (89%)
Query: 659 AAKTTTTTTTTTTTTTTTT 677
AA TTT++TTTTTTTTTT
Sbjct: 677 AAANTTTSSTTTTTTTTTT 695
Score = 37.4 bits (86), Expect = 0.038
Identities = 15/33 (45%), Positives = 20/33 (60%)
Query: 660 AKTTTTTTTTTTTTTTTTNYLLPITMSRYDSCP 692
A TTT++TTTTTTTTT T ++ + P
Sbjct: 677 AAANTTTSSTTTTTTTTTTAAPTTTTTKAANAP 709
Score = 36.3 bits (83), Expect = 0.078
Identities = 16/24 (66%), Positives = 18/24 (75%)
Query: 652 SVFSKAKAAKTTTTTTTTTTTTTT 675
SV A A TT++TTTTTTTTTT
Sbjct: 672 SVTVPAAANTTTSSTTTTTTTTTT 695
Score = 34.7 bits (79), Expect = 0.23
Identities = 12/39 (30%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 640 VLQSVQIFKIGKSVFSKAKAAKTTTTTTTTTTTTTTTTN 678
+L +++ F G S + + + +T+ +TT + +TTTTN
Sbjct: 269 ILAALEAFANG-SASANSTSNSNSTSNSTTNSNSTTTTN 306
Score = 32.8 bits (74), Expect = 0.90
Identities = 11/24 (45%), Positives = 17/24 (70%)
Query: 655 SKAKAAKTTTTTTTTTTTTTTTTN 678
S + + TT + +TTTT +TT+TN
Sbjct: 289 SNSTSNSTTNSNSTTTTNSTTSTN 312
Score = 32.4 bits (73), Expect = 1.1
Identities = 11/38 (28%), Positives = 22/38 (57%)
Query: 641 LQSVQIFKIGKSVFSKAKAAKTTTTTTTTTTTTTTTTN 678
+Q++Q S S + A T+ + +TT+ +TT++N
Sbjct: 95 IQAIQSGSGSASGNSSSSANSTSNSNSTTSNNSTTSSN 132
Score = 32.4 bits (73), Expect = 1.2
Identities = 22/65 (33%), Positives = 27/65 (41%), Gaps = 8/65 (12%)
Query: 650 GKSVFSKAKAAKTTTTTTTTTTTTT---TTTNYLLPITMSRYDSCPRYLNMAII-----C 701
G A T++TTTTTTTTTT TTT Y C ++ A C
Sbjct: 671 GSVTVPAAANTTTSSTTTTTTTTTTAAPTTTTTKAANAPFTYPLCNLIMSAACSAGGAGC 730
Query: 702 TYVLV 706
TY +
Sbjct: 731 TYPFI 735
>gnl|CDD|219071 pfam06525, SoxE, Sulfocyanin (SoxE). This family consists of
several archaeal sulfocyanin (or blue copper protein)
sequences from a number of Sulfolobus species.
Length = 195
Score = 34.8 bits (80), Expect = 0.099
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 8/61 (13%)
Query: 633 GAILVMKVLQSVQIF---KIGKSVFSKAKAAKTTTTTTTTTTTTTTTTNYLLPITMSRYD 689
AI+V V+ V ++ I K+ + + + T+T+TT+++TT LP YD
Sbjct: 2 VAIVVAIVVVGVAVYTFTNITKTYNTTSMLSSPTSTSTTSSSTTLPPGAITLP-----YD 56
Query: 690 S 690
S
Sbjct: 57 S 57
>gnl|CDD|206099 pfam13928, Flocculin_t3, Flocculin type 3 repeat. This repeat is
found in the Flocculation protein FLO9 close to its
C-terminus.
Length = 41
Score = 31.4 bits (72), Expect = 0.12
Identities = 11/18 (61%), Positives = 11/18 (61%)
Query: 662 TTTTTTTTTTTTTTTTNY 679
TTT TT TTT T T Y
Sbjct: 17 TTTVTTGTTTVTGVVTVY 34
Score = 30.7 bits (70), Expect = 0.25
Identities = 9/20 (45%), Positives = 9/20 (45%)
Query: 658 KAAKTTTTTTTTTTTTTTTT 677
TT TTT T T TT
Sbjct: 17 TTTVTTGTTTVTGVVTVYTT 36
Score = 29.1 bits (66), Expect = 0.91
Identities = 11/22 (50%), Positives = 12/22 (54%), Gaps = 1/22 (4%)
Query: 663 TTTTTTTTTTTTTTTNYLLPIT 684
TT TTT T T T Y P+T
Sbjct: 21 TTGTTTVTGVVTVYTTY-CPLT 41
Score = 28.3 bits (64), Expect = 1.4
Identities = 11/23 (47%), Positives = 12/23 (52%)
Query: 655 SKAKAAKTTTTTTTTTTTTTTTT 677
S K + TT TT TTT T T
Sbjct: 11 SDNKCSTTTVTTGTTTVTGVVTV 33
>gnl|CDD|219426 pfam07489, Tir_receptor_C, Translocated intimin receptor (Tir)
C-terminus. Intimin and its translocated intimin
receptor (Tir) are bacterial proteins that mediate
adhesion between mammalian cells and attaching and
effacing (A/E) pathogens. A unique and essential feature
of A/E bacterial pathogens is the formation of
actin-rich pedestals beneath the intimately adherent
bacteria and localised destruction of the intestinal
brush border. The bacterial outer membrane adhesin,
intimin, is necessary for the production of the A/E
lesion and diarrhoea. The A/E bacteria translocate their
own receptor for intimin, Tir, into the membrane of
mammalian cells using the type III secretion system. The
translocated Tir triggers additional host signalling
events and actin nucleation, which are essential for
lesion formation. This family represents the Tir
C-terminal domain which has been reported to bind
uninfected host cells and beta-1 integrins although the
role of intimin binding to integrins is unclear. This
intimin C-terminal domain has also been shown to be
sufficient for Tir recognition.
Length = 222
Score = 32.6 bits (74), Expect = 0.59
Identities = 14/20 (70%), Positives = 15/20 (75%)
Query: 659 AAKTTTTTTTTTTTTTTTTN 678
+TTTTTTTTTTT TT N
Sbjct: 57 VEQTTTTTTTTTTTHTTVEN 76
>gnl|CDD|223714 COG0641, AslB, Arylsulfatase regulator (Fe-S oxidoreductase)
[General function prediction only].
Length = 378
Score = 33.2 bits (76), Expect = 0.63
Identities = 28/170 (16%), Positives = 60/170 (35%), Gaps = 14/170 (8%)
Query: 276 STYNRDNPENEATFSHPNINFHFFPFLLFRHIQMLRKHPIQKAIHTSSKLLDLNEFFDSP 335
+T N +N HP +HF + IQ P+ + + ++ L EF +
Sbjct: 159 NTLTVVNRQN---VLHPEEIYHFLKSEGSKFIQF---IPL---VESDNRGDSLLEFSVTA 209
Query: 336 KNFGAEQVRVGRSWRKEELRVKSSSDLHKLWYVLLKEQNMLKTMEHECKEKFIVFPNPER 395
+ +G + + W + ++ + +L L L C ++ +V PN +
Sbjct: 210 EEYGQFLIAIFDEWVRHDVGRIFIQNFDQLLKAWLGPPGSLCIFSETCGDELVVEPNGDI 269
Query: 396 IDKNFF--PNFIDPNLLNVPNFIKCSVSSYRYVLLKEQNMLKTMEHECKE 443
+ F P + N+ + + +Q K + +C+
Sbjct: 270 YSCDHFVYPEYKLGNIHETSLAQMLASPQQQQFGADKQ---KGLSAKCQR 316
>gnl|CDD|238243 cd00427, Ribosomal_L29_HIP, Ribosomal L29 protein/HIP. L29 is a
protein of the large ribosomal Subunit. A homolog,
called heparin/heparan sulfate interacting protein
(HIP), has also been identified in mammals. L29 is
located on the surface of the large ribosomal subunit,
where it participates in forming a protein ring that
surrounds the polypeptide exit channel, providing
structural support for the ribosome. L29 is involved in
forming the translocon binding site, along with L19,
L22, L23, L24, and L31e. In addition, L29 and L23 form
the interaction site for trigger factor (TF) on the
ribosomal surface, adjacent to the exit tunnel. L29
forms numerous interactions with L23 and with the 23S
rRNA. In some eukaryotes, L29 is referred to as L35,
which is distinct from L35 found in bacteria and some
eukaryotes (primarily plastids and mitochondria). The
mammalian homolog, HIP, is found on the surface of many
tissues and cell lines. It is believed to play a role in
cell adhesion and modulation of blood coagulation. It
has also been shown to inhibit apoptosis in cancer
cells.
Length = 57
Score = 29.4 bits (67), Expect = 0.79
Identities = 10/26 (38%), Positives = 13/26 (50%)
Query: 353 ELRVKSSSDLHKLWYVLLKEQNMLKT 378
ELR KS +L + L KE L+
Sbjct: 2 ELREKSDEELQEKLDELKKELFNLRF 27
>gnl|CDD|226406 COG3889, COG3889, Predicted solute binding protein [General
function prediction only].
Length = 872
Score = 32.9 bits (75), Expect = 0.86
Identities = 14/65 (21%), Positives = 21/65 (32%), Gaps = 9/65 (13%)
Query: 620 ETPNFYFLLLQYSGAILVMKVLQSVQIFKIGKSVFSKAKAAKTTTTTTTTTTTTTTTTNY 679
T L ++ SV I K +T TTT++ + T TT+
Sbjct: 780 PTKTETTLSYSAYSNTSILIETTSVVITKT---------VTQTQTTTSSPSPTQTTSPTQ 830
Query: 680 LLPIT 684
T
Sbjct: 831 TSTST 835
>gnl|CDD|132198 TIGR03154, sulfolob_CbsA, cytochrome b558/566, subunit A. Members
of this protein family are CbsA, one subunit of a highly
glycosylated, heterodimeric, mono-heme cytochrome
b558/566, found in Sulfolobus acidocaldarius and several
other members of the Sulfolobales, a branch of the
Crenarchaeota.
Length = 465
Score = 32.7 bits (74), Expect = 1.0
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 11/48 (22%)
Query: 648 KIGKSVFSKA-----------KAAKTTTTTTTTTTTTTTTTNYLLPIT 684
K+G+++F K+ T T+TTT+T+ +TTT+ +P T
Sbjct: 393 KLGETLFDKSITSSFLTLELVTTPPTPPTSTTTSTSPSTTTSSAIPST 440
>gnl|CDD|223997 COG1071, AcoA, Pyruvate/2-oxoglutarate dehydrogenase complex,
dehydrogenase (E1) component, eukaryotic type, alpha
subunit [Energy production and conversion].
Length = 358
Score = 32.2 bits (74), Expect = 1.2
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 18/78 (23%)
Query: 509 PKELNKEWQKNNPVIDNRTLAVKKFLVLLKEKLLKKEYAKMKNEEKEVAQIFATYKDVDV 568
KE +EW+K +P +V L++ L++ +EE E+ I A K
Sbjct: 277 SKEEVEEWKKRDP------------IVRLRKYLIEAGIL---SEE-ELEAIEAEAKAEVD 320
Query: 569 EAVQ--EKYPDVDVEEMC 584
EAV+ E P DV E+
Sbjct: 321 EAVEFAEASPYPDVSELF 338
>gnl|CDD|218421 pfam05086, Dicty_REP, Dictyostelium (Slime Mold) REP protein. This
family consists of REP proteins from Dictyostelium
(Slime molds). REP protein is likely involved in
transcription regulation and control of DNA replication,
specifically amplification of plasmid at low copy
numbers. The formation of homomultimers may be required
for their regulatory activity.
Length = 910
Score = 32.5 bits (74), Expect = 1.3
Identities = 14/23 (60%), Positives = 14/23 (60%)
Query: 655 SKAKAAKTTTTTTTTTTTTTTTT 677
SK TTTTTTTTTTT T
Sbjct: 249 SKRPNNTTTTTTTTTTTTFQPRT 271
Score = 32.1 bits (73), Expect = 1.5
Identities = 15/36 (41%), Positives = 18/36 (50%)
Query: 642 QSVQIFKIGKSVFSKAKAAKTTTTTTTTTTTTTTTT 677
S+ I + +K TTTTTTTTTTTT
Sbjct: 234 ISINSENIQRINSQPSKRPNNTTTTTTTTTTTTFQP 269
>gnl|CDD|234275 TIGR03599, YloV, DAK2 domain fusion protein YloV. This model
describes a protein family that contains an N-terminal
DAK2 domain (pfam02734), so named because of similarity
to the dihydroxyacetone kinase family family. The
GTP-binding protein CgtA (a member of the obg family) is
a bacterial GTPase associated with ribosome biogenesis,
and it has a characteristic extension (TIGR03595) in
certain lineages. This protein family described here was
found, by the method of partial phylognetic profiling,
to have a phylogenetic distribution strongly correlated
to that of TIGR03595. This correlation implies some form
of functional coupling.
Length = 530
Score = 32.2 bits (74), Expect = 1.5
Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 10/66 (15%)
Query: 522 VIDNRTLAVKKFLVLLKEKLLKKEYAKMKNEEKEVAQIF----ATYKDVD--VEAVQEKY 575
++D + +AV K +KLL K + +E+ E+ IF AT ++ + ++EKY
Sbjct: 453 IVDGKIVAVGKDPEDAAKKLLDK----LLDEDSELITIFYGEDATEEEAEELEAFIEEKY 508
Query: 576 PDVDVE 581
PDV+VE
Sbjct: 509 PDVEVE 514
>gnl|CDD|177303 PHA00735, PHA00735, hypothetical protein.
Length = 808
Score = 31.8 bits (72), Expect = 2.1
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 660 AKTTTTTTTTTTTTTTTTNYLLPITMS 686
+ TT+TTTT T+T NY P + +
Sbjct: 695 TQPTTSTTTTVNTSTLNYNYTQPFSNN 721
>gnl|CDD|201386 pfam00676, E1_dh, Dehydrogenase E1 component. This family uses
thiamine pyrophosphate as a cofactor. This family
includes pyruvate dehydrogenase, 2-oxoglutarate
dehydrogenase and 2-oxoisovalerate dehydrogenase.
Length = 303
Score = 31.1 bits (71), Expect = 2.1
Identities = 17/80 (21%), Positives = 33/80 (41%), Gaps = 20/80 (25%)
Query: 504 SEYDVPKELNKEWQKNNPVIDNRTLAVKKFLVLLKEKLLKKEYA---KMKNEEKEV-AQI 559
S Y +E+ + +K +P + LK+ L+ + ++K EKEV +I
Sbjct: 240 STYRTREEVEEVRKKKDP------------IKRLKKHLVSRGVVSEEELKEIEKEVRKEI 287
Query: 560 FATYKDVDVEAVQEKYPDVD 579
K +A + P+ +
Sbjct: 288 EEAVK----KAESDPEPNPE 303
>gnl|CDD|214423 MTH00112, ND2, NADH dehydrogenase subunit 2; Provisional.
Length = 346
Score = 31.3 bits (72), Expect = 2.1
Identities = 10/24 (41%), Positives = 13/24 (54%), Gaps = 2/24 (8%)
Query: 661 KTTTTTTTTTTTTTTTTNYLLPIT 684
K T T T TT +T LLP++
Sbjct: 318 KPKKNTLTATLTTLSTL--LLPLS 339
>gnl|CDD|233707 TIGR02071, PBP_1b, penicillin-binding protein 1B. Bacterial that
synthesize a cell wall of peptidoglycan (murein)
generally have several transglycosylases and
transpeptidases for the task. This family consists of a
particular bifunctional transglycosylase/transpeptidase
in E. coli and other Proteobacteria, designated
penicillin-binding protein 1B [Cell envelope,
Biosynthesis and degradation of murein sacculus and
peptidoglycan].
Length = 730
Score = 31.6 bits (72), Expect = 2.2
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 155 IDNRTLAVKKFLVLLKEKLLKKEYAKMKSWVFFKVFTTMTLRDTNHLQRCLAEPYGIGAL 214
I +R A FL L++ +L +K K+K ++FTT+ + ++ + E I AL
Sbjct: 341 IISRQPA---FLQLVRRELRQKLGDKVKDLSGLRIFTTLDPVSQSAAEQAVQE--TIPAL 395
Query: 215 NNIYKNEEKEVAQIFATYKDVDVEAV 240
K + E A + +V A+
Sbjct: 396 KKKKKLPDLEAAMVVTDRFTGEVRAM 421
>gnl|CDD|237986 cd00019, AP2Ec, AP endonuclease family 2; These endonucleases play
a role in DNA repair. Cleave phosphodiester bonds at
apurinic or apyrimidinic sites; the alignment also
contains hexulose-6-phosphate isomerases, enzymes that
catalyze the epimerization of D-arabino-6-hexulose
3-phosphate to D-fructose 6-phosphate, via cleaving the
phosphoesterbond with the sugar. .
Length = 279
Score = 30.8 bits (70), Expect = 2.7
Identities = 18/85 (21%), Positives = 31/85 (36%), Gaps = 15/85 (17%)
Query: 432 NMLKTME--HECKEKFIVF--------PNPERIDKVQESMENLEDVIRERNVAYFQLETT 481
+ +E E + +VF E + +V E++ L D + V LET
Sbjct: 86 RLKDEIERCEELGIRLLVFHPGSYLGQSKEEGLKRVIEALNELIDKAETKGV-VIALETM 144
Query: 482 HTGERPAELIDNAFG-LKEVYTKSE 505
I ++F LKE+ +
Sbjct: 145 AG---QGNEIGSSFEELKEIIDLIK 166
>gnl|CDD|204055 pfam08764, Coagulase, Staphylococcus aureus coagulase.
Staphylococcus aureus secretes a cofactor called
coagulase. Coagulase is an extracellular protein that
forms a complex with human prothrombin, and activates it
without the usual proteolytic cleavages. The resulting
complex directly initiates blood clotting.
Length = 282
Score = 30.9 bits (70), Expect = 2.8
Identities = 25/103 (24%), Positives = 46/103 (44%), Gaps = 14/103 (13%)
Query: 503 KSEYDVPKELNKEWQKNNPVIDNRTLAVKKFLVLLKEKLLKKEYAKMKNEEKEVAQIFAT 562
K+EY+ K+ K++++ NP + K+ + L KEY ++ K+ + F
Sbjct: 76 KAEYEKYKKWYKKYKEENPNSKLKMKTFHKYNL---YDLTMKEYNEISKSLKDAVEDFKK 132
Query: 563 YKDVDVEAVQEKYPDV-----DVEEMCVKRVSSKVLLNESDLL 600
+V+ +Q K D+ + EE V L++E D L
Sbjct: 133 ----EVKKIQSKNSDLKPYSEEEEEKATDEVYD--LVSEIDTL 169
>gnl|CDD|221124 pfam11496, HDA2-3, Class II histone deacetylase complex subunits 2
and 3. This family of class II histone deacetylase
complex subunits HDA2 and HDA3 is found in fungi, The
member from S. pombe is referred to as Ccq1. These
proteins associate with HDA1 to generate the activity of
the HDA1 histone deacetylase complex. HDA1 interacts
with itself and with the HDA2-HDA3 subcomplex to form a
probable tetramer and these interactions are necessary
for catalytic activity. The HDA1 histone deacetylase
complex is responsible for the deacetylation of lysine
residues on the N-terminal part of the core histones
(H2A, H2B, H3 and H4). Histone deacetylation gives a tag
for epigenetic repression and plays an important role in
transcriptional regulation, cell cycle progression and
developmental events. HDA2 and HDA3 have a conserved
coiled-coil domain towards their C-terminus.
Length = 279
Score = 30.8 bits (70), Expect = 3.1
Identities = 14/45 (31%), Positives = 20/45 (44%), Gaps = 5/45 (11%)
Query: 293 NINFHFFPFLLFRHI---QMLRKHPIQKAIHTSSKLLDLNEFFDS 334
+ H P+LL H +L K P + TS K L LN+ +
Sbjct: 64 LVATH--PYLLIDHYMPKSLLLKEPPEHLAETSGKFLVLNDLINL 106
>gnl|CDD|222317 pfam13684, Dak1_2, Dihydroxyacetone kinase family. This is the
kinase domain of the dihydroxyacetone kinase family.
Length = 309
Score = 30.2 bits (69), Expect = 4.9
Identities = 18/50 (36%), Positives = 28/50 (56%), Gaps = 8/50 (16%)
Query: 539 EKLLKKEYAKMKNEEKEVAQIFATYKDVD-------VEAVQEKYPDVDVE 581
E+ KK KM +E+ E+ I+ +DV E ++EKYPD++VE
Sbjct: 245 EEAAKKLLDKMLDEDSELVTIYYG-EDVSEEEAEALAEHIEEKYPDLEVE 293
>gnl|CDD|227281 COG4945, COG4945, Membrane-anchored protein predicted to be
involved in regulation of amylopullulanase [Carbohydrate
transport and metabolism].
Length = 570
Score = 30.3 bits (68), Expect = 5.2
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 5/56 (8%)
Query: 662 TTTTTTTTTTTTTTTTNYLLPITMSRYDSCPRYL---NMAIICTYV--LVEGRRLE 712
TTT T T+ T ++ L PI ++ P L + I L RR E
Sbjct: 515 MRTTTGTMLTSETFSSPILQPIPYLYPEADPSTLSVYGLGIPLGIAASLYNARRRE 570
>gnl|CDD|223123 COG0045, SucC, Succinyl-CoA synthetase, beta subunit [Energy
production and conversion].
Length = 387
Score = 30.3 bits (69), Expect = 5.5
Identities = 36/142 (25%), Positives = 58/142 (40%), Gaps = 20/142 (14%)
Query: 482 HTGERPAELIDNAFGLKEVYTKSEYDVPKELNKEWQKNNPVIDNRTLAVKKFLVLLKEKL 541
H G R A G+K + E KE +E N D + V K LV +
Sbjct: 50 HAGGR-----GKAGGVKLAKSPEEA---KEAAEEILGKNYQTDIKGEPVNKVLVEEAVDI 101
Query: 542 LKKEY---AKMKNEEKEVAQIFATYKDVDVEAVQEKYPDVDVEEMCVKRVSSKVLLNESD 598
+KKEY + + + +T +D+E V EK P+ + +VS L
Sbjct: 102 IKKEYYLSIVLDRSSRRPVLMASTEGGMDIEEVAEKTPEK------IVKVSVDPLTG--- 152
Query: 599 LLGHEIRKLRTTIGLPGRDLRE 620
L ++ R+L +GL G +++
Sbjct: 153 LRPYQARELAFKLGLEGELVKQ 174
>gnl|CDD|238558 cd01138, FeuA, Periplasmic binding protein FeuA. These proteins
have predicted to function as initial receptors in ABC
transport of metal ions 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 = 248
Score = 29.6 bits (67), Expect = 5.9
Identities = 21/111 (18%), Positives = 40/111 (36%), Gaps = 19/111 (17%)
Query: 491 IDNAFGLKEVYTKSEYDVPKELNKEWQKNNP---VIDNR-------------TLAVKKFL 534
N + K+ K V + ++ + P ++ ++ T+ V
Sbjct: 37 GKNPYYKKKTLAKVVGIVDEPNLEKVLELKPDLIIVSSKQEENYEKLSKIAPTVPVSYNS 96
Query: 535 VLLKEKLLKKEYAKMKNEEKEVAQIFATYKDVDVEAVQEKYPDVDVEEMCV 585
+E+L KE K+ N+E E + A YK + +EK + V
Sbjct: 97 SDWEEQL--KEIGKLLNKEDEAEKWLADYKQ-KAKEAKEKIKKKLGNDKSV 144
>gnl|CDD|130412 TIGR01345, malate_syn_G, malate synthase G. This model describes
the G isozyme of malate synthase. Isocitrate synthase
and malate synthase form the glyoxylate shunt, which
generates additional TCA cycle intermediates [Energy
metabolism, TCA cycle].
Length = 721
Score = 30.3 bits (68), Expect = 5.9
Identities = 10/22 (45%), Positives = 16/22 (72%)
Query: 726 LVSNEQVQESMENLEDVIRERN 747
+VS EQVQ S+E + V+ ++N
Sbjct: 648 IVSKEQVQASLERMAKVVDQQN 669
>gnl|CDD|222812 PHA00727, PHA00727, hypothetical protein.
Length = 278
Score = 29.4 bits (66), Expect = 6.9
Identities = 13/29 (44%), Positives = 18/29 (62%)
Query: 659 AAKTTTTTTTTTTTTTTTTNYLLPITMSR 687
TTTT TTTTTTT+ ++ +P S+
Sbjct: 249 VTNTTTTHLATTTTTTTSPSFTIPSNSSK 277
>gnl|CDD|184553 PRK14176, PRK14176, bifunctional 5,10-methylene-tetrahydrofolate
dehydrogenase/ 5,10-methylene-tetrahydrofolate
cyclohydrolase; Provisional.
Length = 287
Score = 29.4 bits (66), Expect = 7.7
Identities = 18/42 (42%), Positives = 24/42 (57%), Gaps = 5/42 (11%)
Query: 223 KEVAQIFATYKDVDVEAVQEK-YPDVDVEEVRQRSLLFVPVP 263
KE A IF DV + ++K Y DVD E V +++ L PVP
Sbjct: 227 KEGAVIF----DVGITKEEDKVYGDVDFENVIKKASLITPVP 264
>gnl|CDD|233234 TIGR01016, sucCoAbeta, succinyl-CoA synthetase, beta subunit. This
model is designated subfamily because it does not
discriminate the ADP-forming enzyme ((EC 6.2.1.5) from
the GDP_forming (EC 6.2.1.4) enzyme. The N-terminal half
is described by the CoA-ligases model (pfam00549). The
C-terminal half is described by the ATP-grasp model
(pfam02222). This family contains a split seen both in a
maximum parsimony tree (which ignores gaps) and in the
gap pattern near position 85 of the seed alignment.
Eukaryotic and most bacterial sequences are longer and
contain a region similar to TXQTXXXG. Sequences from
Deinococcus radiodurans, Mycobacterium tuberculosis,
Streptomyces coelicolor, and the Archaea are 6 amino
acids shorter in that region and contain a motif
resembling [KR]G [Energy metabolism, TCA cycle].
Length = 386
Score = 29.7 bits (67), Expect = 8.1
Identities = 46/189 (24%), Positives = 75/189 (39%), Gaps = 33/189 (17%)
Query: 438 EHECKEKFIVFPNPERIDKVQESMENLEDVIRERN----VAYFQLETTHTGERPAELIDN 493
E++ K+ F + P V S+E E++ + V Q+ H G R
Sbjct: 5 EYQAKQIFAKYGIPVPRGYVATSVEEAEEIAAKLGAGPVVVKAQV---HAGGR-----GK 56
Query: 494 AFGLKEVYTKSEYD--VPKELNKEWQKNNPVIDNRTLAVKKFLVLLKEKL-LKKEY---A 547
A G+K +K E K L KE N D V K +L++E + KEY
Sbjct: 57 AGGVKVAKSKEEARAAAEKLLGKELVTNQ--TDPLGQPVNK--ILIEEATDIDKEYYLSI 112
Query: 548 KMKNEEKEVAQIFATYKDVDVEAVQEKYPDVDVEEMCVKRVSSKVLLNESD-LLGHEIRK 606
+ + + +T VD+E V EK P+ + K ++ LL ++ R+
Sbjct: 113 VIDRSARCPVIMASTEGGVDIEEVAEKSPEKII----------KYAIDPLTGLLPYQARE 162
Query: 607 LRTTIGLPG 615
+ +GL G
Sbjct: 163 IAKKLGLEG 171
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 0.398
Gapped
Lambda K H
0.267 0.0775 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 46,871,839
Number of extensions: 4708996
Number of successful extensions: 5705
Number of sequences better than 10.0: 1
Number of HSP's gapped: 5499
Number of HSP's successfully gapped: 81
Length of query: 908
Length of database: 10,937,602
Length adjustment: 106
Effective length of query: 802
Effective length of database: 6,236,078
Effective search space: 5001334556
Effective search space used: 5001334556
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: 64 (28.3 bits)