RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16997
(105 letters)
>gnl|CDD|189895 pfam01221, Dynein_light, Dynein light chain type 1.
Length = 86
Score = 86.5 bits (215), Expect = 7e-24
Identities = 31/89 (34%), Positives = 48/89 (53%), Gaps = 4/89 (4%)
Query: 18 TYPLVHKTDMADELMTEVVDLCSMACEKHAANLE-QASRVIKDTMDKKYGPAWHVVVGET 76
+V DM +E+ + ++ + A EK N+E + IK DKKYGP WH +VG+
Sbjct: 1 GKAVVKNADMPEEMQEDAIECAAEALEKF--NVEKDIAAHIKKEFDKKYGPTWHCIVGKN 58
Query: 77 FGFEITYECKSLLYMFFGGNLAICMWKCS 105
FG +T+E K +Y + G LA ++K
Sbjct: 59 FGSYVTHETKHFIYFYI-GQLAFLLFKTG 86
>gnl|CDD|185421 PTZ00059, PTZ00059, dynein light chain; Provisional.
Length = 90
Score = 64.8 bits (158), Expect = 3e-15
Identities = 33/97 (34%), Positives = 53/97 (54%), Gaps = 9/97 (9%)
Query: 9 REEEKKIVHTYPLVHKTDMADELMTEVVDLCSMACEKHAANLEQ-ASRVIKDTMDKKYGP 67
++K V V DM++++ + +D + A EK N+E+ + IK DKKY P
Sbjct: 1 MMSDRKAV-----VKNADMSEDMQQDAIDCANQALEKF--NIEKDIAAYIKKEFDKKYNP 53
Query: 68 AWHVVVGETFGFEITYECKSLLYMFFGGNLAICMWKC 104
WH +VG FG +T+E K +Y F+ G +AI ++K
Sbjct: 54 TWHCIVGRNFGSYVTHETKHFIY-FYLGQVAILLFKS 89
>gnl|CDD|166697 PLN03058, PLN03058, dynein light chain type 1 family protein;
Provisional.
Length = 128
Score = 40.4 bits (94), Expect = 2e-05
Identities = 15/34 (44%), Positives = 20/34 (58%)
Query: 57 IKDTMDKKYGPAWHVVVGETFGFEITYECKSLLY 90
+K D YGPAWH +VG +FG +T+ LY
Sbjct: 75 LKKEFDSAYGPAWHCIVGTSFGSYVTHSTGGFLY 108
>gnl|CDD|233164 TIGR00877, purD, phosphoribosylamine--glycine ligase. Alternate
name: glycinamide ribonucleotide synthetase (GARS). This
enzyme appears as a monofunctional protein in
prokaryotes but as part of a larger, multidomain protein
in eukaryotes [Purines, pyrimidines, nucleosides, and
nucleotides, Purine ribonucleotide biosynthesis].
Length = 422
Score = 29.6 bits (67), Expect = 0.24
Identities = 13/41 (31%), Positives = 22/41 (53%), Gaps = 2/41 (4%)
Query: 47 AANLEQASRVIKDTMDKKYGPAWHVVVGETF--GFEITYEC 85
A E+A + ++D +++K+G A VV E F G E +
Sbjct: 158 AKTNEEAIKAVEDILEQKFGDAGERVVIEEFLDGEEFSLLA 198
>gnl|CDD|225318 COG2520, COG2520, Predicted methyltransferase [General function
prediction only].
Length = 341
Score = 27.7 bits (62), Expect = 1.2
Identities = 16/64 (25%), Positives = 24/64 (37%), Gaps = 11/64 (17%)
Query: 12 EKKIVHTYPLVHKTDMADELMTEVVDLCSMACEKHAANLEQAS-RVIKDTMDKKYGP-AW 69
+ I+H Y V + D+ + A K +E R + K Y P +
Sbjct: 281 DGGIIHYYEFVPEDDIEE----RPEKRIKSAARKGGYKVEVLKVRRV-----KSYSPGVY 331
Query: 70 HVVV 73
HVVV
Sbjct: 332 HVVV 335
>gnl|CDD|172578 PRK14088, dnaA, chromosomal replication initiation protein;
Provisional.
Length = 440
Score = 27.5 bits (61), Expect = 1.5
Identities = 15/32 (46%), Positives = 18/32 (56%), Gaps = 4/32 (12%)
Query: 57 IKDTMDKKYGPAWHVVVGETFG----FEITYE 84
IK+ ++KKYG V E G FEITYE
Sbjct: 44 IKEWLEKKYGSVLSKAVKEVLGKDATFEITYE 75
>gnl|CDD|237367 PRK13371, PRK13371, 4-hydroxy-3-methylbut-2-enyl diphosphate
reductase; Provisional.
Length = 387
Score = 26.4 bits (59), Expect = 3.1
Identities = 8/18 (44%), Positives = 13/18 (72%)
Query: 51 EQASRVIKDTMDKKYGPA 68
E+ ++ + TM +KYGPA
Sbjct: 241 EEIGKLFERTMLRKYGPA 258
>gnl|CDD|152819 pfam12384, Peptidase_A2B, Ty3 transposon peptidase. Ty3 is a
gypsy-type, retrovirus-like, element found in the
budding yeast. The Ty3 aspartyl protease is required
for processing of the viral polyprotein into its mature
species.
Length = 177
Score = 26.1 bits (57), Expect = 3.6
Identities = 8/23 (34%), Positives = 16/23 (69%)
Query: 1 MADTEVVSREEEKKIVHTYPLVH 23
+AD E+ S++ +K + + P+VH
Sbjct: 2 LADLELESKDHKKLFIKSLPIVH 24
>gnl|CDD|187653 cd08950, KR_fFAS_SDR_c_like, ketoacyl reductase (KR) domain of
fungal-type fatty acid synthase (fFAS), classical
(c)-like SDRs. KR domain of fungal-type fatty acid
synthase (FAS), type I. Fungal-type FAS is a
heterododecameric FAS composed of alpha and beta
multifunctional polypeptide chains. The KR, an SDR
family member, is located centrally in the alpha chain.
KR catalyzes the NADP-dependent reduction of
ketoacyl-ACP to hydroxyacyl-ACP. KR shares the critical
active site Tyr of the Classical SDR and has partial
identity of the active site tetrad, but the upstream Asn
is replaced in KR by Met. As in other SDRs, there is a
glycine rich NAD-binding motif, but the pattern found in
KR does not match the classical SDRs, and is not
strictly conserved within this group. SDRs are a
functionally diverse family of oxidoreductases that have
a single domain with a structurally conserved Rossmann
fold (alpha/beta folding pattern with a central
beta-sheet), an NAD(P)(H)-binding region, and a
structurally diverse C-terminal region. Classical SDRs
are typically about 250 residues long, while extended
SDRs are approximately 350 residues. Sequence identity
between different SDR enzymes are typically in the
15-30% range, but the enzymes share the Rossmann fold
NAD-binding motif and characteristic NAD-binding and
catalytic sequence patterns. These enzymes catalyze a
wide range of activities including the metabolism of
steroids, cofactors, carbohydrates, lipids, aromatic
compounds, and amino acids, and act in redox sensing.
Classical SDRs have an TGXXX[AG]XG cofactor binding
motif and a YXXXK active site motif, with the Tyr
residue of the active site motif serving as a critical
catalytic residue (Tyr-151, human prostaglandin
dehydrogenase (PGDH) numbering). In addition to the Tyr
and Lys, there is often an upstream Ser (Ser-138, PGDH
numbering) and/or an Asn (Asn-107, PGDH numbering)
contributing to the active site; while substrate binding
is in the C-terminal region, which determines
specificity. The standard reaction mechanism is a
4-pro-S hydride transfer and proton relay involving the
conserved Tyr and Lys, a water molecule stabilized by
Asn, and nicotinamide. Extended SDRs have additional
elements in the C-terminal region, and typically have a
TGXXGXXG cofactor binding motif. Complex (multidomain)
SDRs such as ketoreductase domains of fatty acid
synthase have a GGXGXXG NAD(P)-binding motif and an
altered active site motif (YXXXN). Fungal type KRs have
a TGXXXGX(1-2)G NAD(P)-binding motif. Some atypical SDRs
have lost catalytic activity and/or have an unusual
NAD(P)-binding motif and missing or unusual active site
residues. Reactions catalyzed within the SDR family
include isomerization, decarboxylation, epimerization,
C=N bond reduction, dehydratase activity,
dehalogenation, Enoyl-CoA reduction, and
carbonyl-alcohol oxidoreduction.
Length = 259
Score = 26.0 bits (58), Expect = 4.3
Identities = 13/43 (30%), Positives = 20/43 (46%), Gaps = 7/43 (16%)
Query: 1 MADTEVVSREEEKKIVHTYPLVHKTDMADELMT----EVVDLC 39
M +V++ EK V T+ +MA L+ EVV+L
Sbjct: 207 MGGNDVLAEAVEKLGVRTFS---TEEMAFNLLGLLSPEVVELA 246
>gnl|CDD|147776 pfam05804, KAP, Kinesin-associated protein (KAP). This family
consists of several eukaryotic kinesin-associated (KAP)
proteins. Kinesins are intracellular multimeric
transport motor proteins that move cellular cargo on
microtubule tracks. It has been shown that the sea
urchin KRP85/95 holoenzyme associates with a KAP115
non-motor protein, forming a heterotrimeric complex in
vitro, called the Kinesin-II.
Length = 708
Score = 25.6 bits (56), Expect = 6.7
Identities = 17/57 (29%), Positives = 29/57 (50%), Gaps = 4/57 (7%)
Query: 1 MADTEVVSREEEKKIVHTYPLVHKTDMADELMTEVVDLCSMACEKHAANLEQASRVI 57
M D + R+E +KI+ L TD+A L EVV+ C + H + L + +++
Sbjct: 29 MGDPMLGERKECQKIIRLKSLNADTDIA-ALAREVVEKCKLI---HPSKLNEVEQLL 81
>gnl|CDD|217847 pfam04018, DUF368, Domain of unknown function (DUF368). Predicted
transmembrane domain of unknown function. Family members
have between 6 and 9 predicted transmembrane segments.
Length = 250
Score = 25.2 bits (56), Expect = 7.5
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 87 SLLYMFFGGNLAIC 100
SLL++FF G +AIC
Sbjct: 137 SLLFLFFAGAIAIC 150
>gnl|CDD|114259 pfam05527, DUF758, Domain of unknown function (DUF758). Family
of eukaryotic proteins with unknown function, which are
induced by tumour necrosis factor.
Length = 186
Score = 25.0 bits (55), Expect = 7.6
Identities = 11/58 (18%), Positives = 29/58 (50%), Gaps = 8/58 (13%)
Query: 2 ADTEVVSREEEKKIVHTYPLVHKTDMADELMTEVVDLCSMACEKHAANLEQASRVIKD 59
A +++S+ K + + + D+ +E++D +++ N ++A +VIK+
Sbjct: 13 AQKKILSKMASKSVANMF--------IDDTSSEILDELYRVTKEYTGNKKEAQKVIKN 62
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
0.321 0.133 0.414
Gapped
Lambda K H
0.267 0.0550 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,088,296
Number of extensions: 402790
Number of successful extensions: 357
Number of sequences better than 10.0: 1
Number of HSP's gapped: 354
Number of HSP's successfully gapped: 15
Length of query: 105
Length of database: 10,937,602
Length adjustment: 70
Effective length of query: 35
Effective length of database: 7,832,822
Effective search space: 274148770
Effective search space used: 274148770
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 (21.9 bits)
S2: 53 (24.6 bits)