RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14199
(677 letters)
>gnl|CDD|217380 pfam03133, TTL, Tubulin-tyrosine ligase family. Tubulins and
microtubules are subjected to several post-translational
modifications of which the reversible
detyrosination/tyrosination of the carboxy-terminal end
of most alpha-tubulins has been extensively analysed.
This modification cycle involves a specific
carboxypeptidase and the activity of the
tubulin-tyrosine ligase (TTL). The true physiological
function of TTL has so far not been established.
Tubulin-tyrosine ligase (TTL) catalyzes the
ATP-dependent post-translational addition of a tyrosine
to the carboxy terminal end of detyrosinated
alpha-tubulin. In normally cycling cells, the
tyrosinated form of tubulin predominates. However, in
breast cancer cells, the detyrosinated form frequently
predominates, with a correlation to tumour
aggressiveness. On the other hand, 3-nitrotyrosine has
been shown to be incorporated, by TTL, into the carboxy
terminal end of detyrosinated alpha-tubulin. This
reaction is not reversible by the carboxypeptidase
enzyme. Cells cultured in 3-nitrotyrosine rich medium
showed evidence of altered microtubule structure and
function, including altered cell morphology, epithelial
barrier dysfunction, and apoptosis. Bacterial homologs
of TTL are predicted to form peptide tags. Some of these
are fused to a 2-oxoglutarate Fe(II)-dependent
dioxygenase domain.
Length = 291
Score = 143 bits (363), Expect = 2e-38
Identities = 80/295 (27%), Positives = 123/295 (41%), Gaps = 70/295 (23%)
Query: 378 VNQFPFEYILTIKDLLSIVCRRNSKDIEKTTLQTSPDWLPTTYNLKTELLKFMSYYQNRE 437
+N FP Y +T KDLL +R D + D+LP T+ L T+L +F+ Y+++ E
Sbjct: 11 LNHFPGSYEITRKDLLWKNIKRQPCDFGR-----KFDFLPRTFILPTDLAEFVDYFEDNE 65
Query: 438 KKNLNNLWIIKPFNLARSLDSYITDNINMVIKSALTGPKIIQKYIENPILFYRDDLSGKV 497
+ N WI+KP AR IT++++ ++K + P ++QKYIE P+L
Sbjct: 66 R----NTWIVKPSASARGRGIRITNDLSQILKQIQSRPLVVQKYIERPLLIDG------- 114
Query: 498 KFDVRYVVLVKSVKPLKVYLYKNFFLRDDLSGKVKFDVRYVVLVKSVKPLKVYLYKNFFL 557
KFD+R VLV SV PL+VY+Y+ L
Sbjct: 115 ---------------------------------RKFDIRLYVLVTSVNPLRVYVYREGLL 141
Query: 558 RFANKPF--ELSKFDDYEIHFTVMNYDDKTPLC---KMLCSDFK---IEFEKQNPNENWD 609
RFA+ + +S DD E+H T + K+ + K F K ++ +
Sbjct: 142 RFASVKYSPSVSDLDDVEMHLTNYSIQKKSSSLNEDYNEPNGHKWSLFNFWKYLEEKDKE 201
Query: 610 HIESKINPSENWDHIESKIVTMFRSVFEAATMKDPPLGLGHNVQSRSLYAADLML 664
I W IES I+ AA ++ L + LY D M+
Sbjct: 202 EI---------WLEIESIIIK----TILAAEVEASRLNVQPLYNCFELYGFDFMI 243
>gnl|CDD|162945 TIGR02604, Piru_Ver_Nterm, putative membrane-bound dehydrogenase
domain. All proteins that score above the trusted
cutoff score of 45 to this model are large proteins of
either Pirellula sp. 1 or Verrucomicrobium spinosum.
These proteins all contain, in addition to this domain,
several hundred residues of highly variable sequence,
and then a well-conserved C-terminal domain (TIGR02603)
that features a putative cytochrome c-type heme binding
motif CXXCH. The membrane-bound L-sorbosone
dehydrogenase from Acetobacter liquefaciens
(Gluconacetobacter liquefaciens) (SP|Q44091) is
homologous to this domain but lacks additional sequence
regions shared by members of this family and belongs to
a different clade of the larger family of homologs. It
and its closely related homologs are excluded from the
this model by scoring between the trusted (45) and noise
(18) cutoffs.
Length = 367
Score = 30.5 bits (69), Expect = 3.3
Identities = 19/79 (24%), Positives = 33/79 (41%), Gaps = 12/79 (15%)
Query: 56 DERGETDPLYK--VVVSNEDGIKKSDRSNIFLIDHAWTYSITTARSDLY--SNPNLLERM 111
G PL +++ + DG K D+SN+F + + + A +Y + P++L
Sbjct: 37 RPAGRQGPLGDRILILEDADGDGKYDKSNVFAEELSMVTGLAVAVGGVYVATPPDIL--- 93
Query: 112 SNLMGVDVDSDTDDKVEQV 130
D D DDK +
Sbjct: 94 -----FLRDKDGDDKADGE 107
>gnl|CDD|223933 COG1001, AdeC, Adenine deaminase [Nucleotide transport and
metabolism].
Length = 584
Score = 30.3 bits (69), Expect = 4.2
Identities = 18/74 (24%), Positives = 29/74 (39%), Gaps = 15/74 (20%)
Query: 271 NIITDEDKILKVYSEYKYVDFNQIEPGAEYFSSGHIEEHL--PSS---PT---------- 315
+I +I+ V EY+ I+ Y G I+ HL SS P+
Sbjct: 45 DIAIAGGRIVGVIGEYRAEATEVIDAAGRYIVPGFIDAHLHIESSMLTPSEFARAVLPHG 104
Query: 316 VTDIITDEDKILKV 329
T +++D +I V
Sbjct: 105 TTTVVSDPHEIANV 118
>gnl|CDD|181222 PRK08073, flgL, flagellar hook-associated protein FlgL; Validated.
Length = 287
Score = 29.6 bits (66), Expect = 5.9
Identities = 17/52 (32%), Positives = 27/52 (51%), Gaps = 3/52 (5%)
Query: 123 TDDKVEQVFHE--MWKYNNTYSVKSTADGDTLL-PVWYIMDEFGSAIQHSDE 171
T+D Q E W+ N+ Y VK+ +G+ LL PV + + A+Q D+
Sbjct: 146 TEDGTYQGGTEDVNWRLNDGYEVKAFRNGEALLTPVINTLKKMVDAMQTGDQ 197
>gnl|CDD|173040 PRK14576, PRK14576, putative endopeptidase; Provisional.
Length = 405
Score = 29.6 bits (66), Expect = 6.6
Identities = 14/46 (30%), Positives = 23/46 (50%)
Query: 134 MWKYNNTYSVKSTADGDTLLPVWYIMDEFGSAIQHSDEPNMRIVPF 179
M+ + +T + + D +P IM+EF +A H D PN + F
Sbjct: 47 MYTFRHTGAAVAIMFRDANIPSQIIMNEFEAASTHFDMPNSVLKTF 92
>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P. syringae 6; Provisional.
Length = 1153
Score = 29.5 bits (66), Expect = 6.9
Identities = 20/93 (21%), Positives = 32/93 (34%), Gaps = 2/93 (2%)
Query: 561 NKPFELSKFD--DYEIHFTVMNYDDKTPLCKMLCSDFKIEFEKQNPNENWDHIESKINPS 618
N P +D D + T N K C + S+ PN ++ +N S
Sbjct: 1060 NAPLAELNYDHVDIQFRLTNKNSQLKLKGCGIRLSEDDSSLNNTLPNVEEADDDNPVNGS 1119
Query: 619 ENWDHIESKIVTMFRSVFEAATMKDPPLGLGHN 651
E+W+ E + + M+D L N
Sbjct: 1120 EHWEDCEDSALERESERTKDREMRDRLLKKDLN 1152
>gnl|CDD|221031 pfam11215, DUF3010, Protein of unknown function (DUF3010). This
family of proteins with unknown function appears to be
restricted to Gammaproteobacteria.
Length = 138
Score = 27.9 bits (63), Expect = 8.5
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 15 KQQLLSHAIPIEFWETLGKKLQNHIFDAG 43
K QL + +P++F ET KK Q F
Sbjct: 106 KAQLKRNPLPVDFKETGLKKFQEQAFTTA 134
>gnl|CDD|237708 PRK14418, PRK14418, membrane protein; Provisional.
Length = 236
Score = 28.6 bits (64), Expect = 9.0
Identities = 13/39 (33%), Positives = 25/39 (64%), Gaps = 1/39 (2%)
Query: 190 ILYPIIIKILIFVKFCYILGSLILTIDYVESYQDPDIRK 228
ILY I+I + +F+ Y++GS+ +I + ++ DIR+
Sbjct: 3 ILYSILINLALFL-LGYLIGSINFSIIVSKRFKKDDIRE 40
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
0.319 0.137 0.411
Gapped
Lambda K H
0.267 0.0798 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 35,250,632
Number of extensions: 3557781
Number of successful extensions: 3061
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3054
Number of HSP's successfully gapped: 33
Length of query: 677
Length of database: 10,937,602
Length adjustment: 103
Effective length of query: 574
Effective length of database: 6,369,140
Effective search space: 3655886360
Effective search space used: 3655886360
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)