RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy12552
(250 letters)
>gnl|CDD|238099 cd00170, SEC14, Sec14p-like lipid-binding domain. Found in
secretory proteins, such as S. cerevisiae
phosphatidylinositol transfer protein (Sec14p), and in
lipid regulated proteins such as RhoGAPs, RhoGEFs and
neurofibromin (NF1). SEC14 domain of Dbl is known to
associate with G protein beta/gamma subunits.
Length = 157
Score = 100 bits (250), Expect = 2e-26
Identities = 51/174 (29%), Positives = 81/174 (46%), Gaps = 32/174 (18%)
Query: 22 MPGLTPNGRRVIIMRAS--DLDQVLSADAATGMKLVLMIGDIRLKEESVGVAGDVYVFDA 79
+ G GR V+I+RA DL + L ++ ++ ++ + L+E+ V G V + D
Sbjct: 13 LGGRDKEGRPVLIIRAGNKDLSKSLDSEEL--LRYLVYTLEKLLQEDDEQVEGFVVIID- 69
Query: 80 AIATPQNFAAHIAKFTPTLIKKFLICVQNFAAHIAKFTPTLIKKFLICVQEAYPVKLKEI 139
++ + P+L+KK L +Q+ YP +LK +
Sbjct: 70 --------------------------LKGLSLSHLLPDPSLLKKILKILQDNYPERLKAV 103
Query: 140 HIINASGIVDTIINLVKPFIKEKIRNRIVVH-ADMESLYKSIPKDVLPEEYGGY 192
+IIN + +VKPF+ EK R +IV +D E L K I K+ LPEEYGG
Sbjct: 104 YIINPPWFFKVLWKIVKPFLSEKTRKKIVFLGSDKEELLKYIDKEQLPEEYGGT 157
>gnl|CDD|216042 pfam00650, CRAL_TRIO, CRAL/TRIO domain.
Length = 152
Score = 95.8 bits (239), Expect = 7e-25
Identities = 46/174 (26%), Positives = 75/174 (43%), Gaps = 28/174 (16%)
Query: 20 TPMPGLTPNGRRVIIMRASDLDQVLSADAATGMKLVLMIGDIRLKEESVGVAGDVYVFDA 79
+ G GR V+ +R D S+ LVL++ L + G + D
Sbjct: 4 GYLHGRDKEGRPVLYLRPGRHDPKKSSLEELVRFLVLVLERALLLLPEGQIEGITVIIDM 63
Query: 80 AIATPQNFAAHIAKFTPTLIKKFLICVQNFAAHIAKFTPTLIKKFLICVQEAYPVKLKEI 139
+ +++ K+ + +KK L +Q+ YP +L +I
Sbjct: 64 KGLSL--------------------------SNMDKWPISFLKKILKILQDNYPERLGKI 97
Query: 140 HIINASGIVDTIINLVKPFIKEKIRNRIVVH--ADMESLYKSIPKDVLPEEYGG 191
I+NA I + I L+KPF+ K R +I H +++E L K IP + LP+EYGG
Sbjct: 98 LIVNAPWIFNVIWKLIKPFLDPKTREKIHFHKNSNLEELLKYIPPEQLPKEYGG 151
>gnl|CDD|214706 smart00516, SEC14, Domain in homologues of a S. cerevisiae
phosphatidylinositol transfer protein (Sec14p). Domain
in homologues of a S. cerevisiae phosphatidylinositol
transfer protein (Sec14p) and in RhoGAPs, RhoGEFs and
the RasGAP, neurofibromin (NF1). Lipid-binding domain.
The SEC14 domain of Dbl is known to associate with G
protein beta/gamma subunits.
Length = 158
Score = 73.1 bits (180), Expect = 4e-16
Identities = 28/103 (27%), Positives = 50/103 (48%), Gaps = 2/103 (1%)
Query: 92 AKFTPTLIKKFLICVQNFAAHIAKFTPTLIKKFLICVQEAYPVKLKEIHIINASGIVDTI 151
+ I+ F + ++ ++++K L +Q+ YP +L +++IIN +
Sbjct: 54 EEKKTGGIEGFTVIFDLKGLSMSNPDLSVLRKILKILQDHYPERLGKVYIINPPWFFRVL 113
Query: 152 INLVKPFIKEKIRNRIVVH--ADMESLYKSIPKDVLPEEYGGY 192
++KPF+ EK R +I E L + I K+ LPEE GG
Sbjct: 114 WKIIKPFLDEKTREKIRFVGNDSKEELLEYIDKEQLPEELGGT 156
>gnl|CDD|222339 pfam13716, CRAL_TRIO_2, Divergent CRAL/TRIO domain. This family
includes divergent members of the CRAL-TRIO domain
family. This family includes ECM25 that contains a
divergent CRAL-TRIO domain identified by Gallego and
colleagues.
Length = 149
Score = 43.9 bits (104), Expect = 1e-05
Identities = 20/79 (25%), Positives = 39/79 (49%), Gaps = 2/79 (2%)
Query: 115 KFTPTLIKKFLICVQEAYPVKLKEIHIINASGIVDTII-NLVKPFIKEKIRNRIVVHAD- 172
K + + +KK + A+P LK ++I++ S + + L + F +K+ + V++
Sbjct: 64 KPSWSWLKKLYKLLPRAFPKNLKAVYIVHPSTFLKKFLKTLGRLFSSKKLFKKKVIYVSS 123
Query: 173 MESLYKSIPKDVLPEEYGG 191
+ L + I LP E GG
Sbjct: 124 LSELSEYIDPTQLPLELGG 142
>gnl|CDD|237017 PRK11904, PRK11904, bifunctional proline
dehydrogenase/pyrroline-5-carboxylate dehydrogenase;
Reviewed.
Length = 1038
Score = 31.3 bits (72), Expect = 0.54
Identities = 21/50 (42%), Positives = 26/50 (52%), Gaps = 6/50 (12%)
Query: 32 VIIMRASDLDQVLSADAATGMKLVLMI-----GDIRLKEESVGVAGDVYV 76
VI +ASDLD+V+ A ATG L L I + V V G+VYV
Sbjct: 934 VIRYKASDLDKVIDAINATGYGLTLGIHSRIEETADRIADRVRV-GNVYV 982
>gnl|CDD|216293 pfam01087, GalP_UDP_transf, Galactose-1-phosphate uridyl
transferase, N-terminal domain. SCOP reports fold
duplication with C-terminal domain. Both involved in Zn
and Fe binding.
Length = 170
Score = 28.8 bits (65), Expect = 1.9
Identities = 22/51 (43%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 144 ASGIVDTIINLVKPFIKEKIRNRIVVHADMESLYKSIPKDVLPEEYGGYAG 194
A G + INL KP EK + V A L S PK VL E GYAG
Sbjct: 106 AYGRCEVTINLPKP---EK-DPKAVAAARTAELASSYPKCVLCFENEGYAG 152
>gnl|CDD|217325 pfam03028, Dynein_heavy, Dynein heavy chain and region D6 of dynein
motor. This family represents the C-terminal region of
dynein heavy chain. The chain also contains ATPase
activity and microtubule binding ability and acts as a
motor for the movement of organelles and vesicles along
microtubules. Dynein is also involved in cilia and
flagella movement. The dynein subunit consists of at
least two heavy chains and a number of intermediate and
light chains. The 380 kDa motor unit of dynein belongs
to the AAA class of chaperone-like ATPases. The core of
the 380 kDa motor unit contains a concatenated chain of
six AAA modules, of which four correspond to the ATP
binding sites with P-loop signatures described
previously, and two are modules in which the P loop has
been lost in evolution. This C-terminal domain carries
the D6 region of the dynein motor where the P-loop has
been lost in evolution but the general structure of a
potential ATP binding site appears to be retained.
Length = 706
Score = 28.8 bits (65), Expect = 3.1
Identities = 14/75 (18%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 147 IVDTIINLVKPFIKEKIRNRIVVHADMESLYKSIPKDVLPEEYGGYA-GDIKTINEQWM- 204
I ++ L ++ + + D+E L K++ K +P + A +K + W+
Sbjct: 489 IRRSLKELDL-----GLKGELTMTNDLEDLAKALFKGRVPASWAKLAYPSLKPLG-SWVT 542
Query: 205 ---KKIESYRDWFKE 216
++I +DW ++
Sbjct: 543 DLLRRIRQLQDWTED 557
>gnl|CDD|201900 pfam01642, MM_CoA_mutase, Methylmalonyl-CoA mutase. The enzyme
methylmalonyl-CoA mutase is a member of a class of
enzymes that uses coenzyme B12 (adenosylcobalamin) as a
cofactor. The enzyme induces the formation of an
adenosyl radical from the cofactor. This radical then
initiates a free-radical rearrangement of its substrate,
succinyl-CoA, to methylmalonyl-CoA.
Length = 517
Score = 28.5 bits (64), Expect = 3.5
Identities = 9/24 (37%), Positives = 16/24 (66%)
Query: 77 FDAAIATPQNFAAHIAKFTPTLIK 100
FD A+ P +F+A IA+ T +++
Sbjct: 331 FDEALGLPTDFSARIARNTQLILQ 354
>gnl|CDD|218995 pfam06337, DUSP, DUSP domain. The DUSP (domain present in
ubiquitin-specific protease) domain is found at the
N-terminus of Ubiquitin-specific proteases. The
structure of this domain has been solved. Its
tripod-like structure consists of a 3-fold alpha-helical
bundle supporting a triple-stranded anti-parallel
beta-sheet.
Length = 86
Score = 26.7 bits (59), Expect = 4.5
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 12/74 (16%)
Query: 121 IKKFLICVQEAYPVKLKEIHIINASGIVDTIINLVKPFIKEKIRNRIVVHADMESLYKSI 180
+ ++ V+ E I+ S ++D NL+K Y +
Sbjct: 12 LNQWKSYVKYDKEDPPNEPGPIDNSSLLDDEENLLKQLKPNLQEGV---------DYVLV 62
Query: 181 PKDV---LPEEYGG 191
P++V L E YGG
Sbjct: 63 PEEVWEFLVEWYGG 76
>gnl|CDD|226931 COG4565, CitB, Response regulator of citrate/malate metabolism
[Transcription / Signal transduction mechanisms].
Length = 224
Score = 28.0 bits (63), Expect = 4.5
Identities = 18/90 (20%), Positives = 39/90 (43%), Gaps = 16/90 (17%)
Query: 146 GIVDTIINLVKPFIKEKIRNRIVVHADMESLYKSIP---KDVLPEEYGGYAGDI------ 196
G+VD L+KPF E+++ + + +S + L + + + +
Sbjct: 96 GVVDY---LIKPFTFERLQQALTRYRQKRHALESHQQLSQKELDQLFNIQSKEQPPDDLP 152
Query: 197 KTINEQWMKKIESYRDWFKEQETVK-ADEA 225
K ++E ++K+ R+ KE + A+E
Sbjct: 153 KGLDELTLQKV---REALKEPDQELTAEEL 179
>gnl|CDD|239353 cd03055, GST_N_Omega, GST_N family, Class Omega subfamily; GSTs
are cytosolic dimeric proteins involved in cellular
detoxification by catalyzing the conjugation of
glutathione (GSH) with a wide range of endogenous and
xenobiotic alkylating agents, including carcinogens,
therapeutic drugs, environmental toxins and products of
oxidative stress. The GST fold contains an N-terminal
TRX-fold domain and a C-terminal alpha helical domain,
with an active site located in a cleft between the two
domains. Class Omega GSTs show little or no
GSH-conjugating activity towards standard GST
substrates. Instead, they catalyze the GSH dependent
reduction of protein disulfides, dehydroascorbate and
monomethylarsonate, activities which are more
characteristic of glutaredoxins. They contain a
conserved cysteine equivalent to the first cysteine in
the CXXC motif of glutaredoxins, which is a redox
active residue capable of reducing GSH mixed disulfides
in a monothiol mechanism. Polymorphisms of the class
Omega GST genes may be associated with the development
of some types of cancer and the age-at-onset of both
Alzheimer's and Parkinson's diseases.
Length = 89
Score = 26.2 bits (58), Expect = 7.2
Identities = 7/24 (29%), Positives = 10/24 (41%)
Query: 13 SKSVHNSTPMPGLTPNGRRVIIMR 36
SK + + P P R+ MR
Sbjct: 2 SKHLAKGSAEPPPVPGIIRLYSMR 25
>gnl|CDD|239649 cd03677, MM_CoA_mutase_beta, Coenzyme B12-dependent-methylmalonyl
coenzyme A (CoA) mutase (MCM) family, Beta subunit-like
subfamily; contains bacterial proteins similar to the
beta subunit of MCMs from Propionbacterium shermanni and
Streptomyces cinnamonensis, which are alpha/beta
heterodimers. For P. shermanni MCM, it is known that
only the alpha subunit binds coenzyme B12 and
substrates. The role of the beta subunit is unclear. MCM
catalyzes the isomerization of methylmalonyl-CoA to
succinyl-CoA. The reaction proceeds via radical
intermediates beginning with a substrate-induced
homolytic cleavage of the Co-C bond of coenzyme B12 to
produce cob(II)alamin and the deoxyadenosyl radical. MCM
plays an important role in the conversion of
propionyl-CoA to succinyl-CoA during the degradation of
propionate for the Krebs cycle. Methylobacterium
extorquens MCM participates in the glyoxylate
regeneration pathway. In M. extorquens, MCM forms a
complex with MeaB; MeaB may protect MCM from
irreversible inactivation. In some bacteria, MCM is
involved in the reverse metabolic reaction, the
rearrangement of succinyl-CoA to methylmalonyl-CoA.
Examples include P. shermanni MCM during propionic acid
fermentation and Streptomyces MCM in polyketide
biosynthesis.
Length = 424
Score = 27.6 bits (62), Expect = 7.7
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 68 VGVAGDVYV--FDAAIATPQNFAAHIAKFTPTLIKK--FLICVQNFAA 111
+G A + V FDAA+ P +FA IA+ T ++K+ L V + A
Sbjct: 300 LGGADSITVLPFDAALGLPDDFARRIARNTQLILKEESHLGRVADPAG 347
>gnl|CDD|225183 COG2274, SunT, ABC-type bacteriocin/lantibiotic exporters, contain
an N-terminal double-glycine peptidase domain [Defense
mechanisms].
Length = 709
Score = 27.6 bits (62), Expect = 8.3
Identities = 19/118 (16%), Positives = 41/118 (34%), Gaps = 24/118 (20%)
Query: 68 VGVAGD-VYVFDAAI----ATPQNFAAH----IAKFTPTLIKKFLICVQNFAAHIAKFTP 118
+ + V V D A + + F PT +KF ++ F P
Sbjct: 91 YKIDKNKVVVLDPAKGIRRLSLEEFEKLWTGIALLLAPTASRKF---KDIPPFGLSWFIP 147
Query: 119 TLIKKFLICVQEAYPVKLKEIHIINASGIVDTIINLVKPFIKEKIRNRIVVHADMESL 176
L K + L E+ + + ++ ++ L P + + ++++ A +L
Sbjct: 148 LLFKYRRL---------LFEVLLAS---LLLQLLALATPLFSQIVIDKVLPDASRSTL 193
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 0.137 0.405
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 13,212,834
Number of extensions: 1297290
Number of successful extensions: 1211
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1205
Number of HSP's successfully gapped: 28
Length of query: 250
Length of database: 10,937,602
Length adjustment: 95
Effective length of query: 155
Effective length of database: 6,723,972
Effective search space: 1042215660
Effective search space used: 1042215660
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: 58 (26.1 bits)