RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy16754
(127 letters)
>gnl|CDD|219225 pfam06905, FAIM1, Fas apoptotic inhibitory molecule (FAIM1). This
family consists of several fas apoptotic inhibitory
molecule (FAIM1) proteins. FAIM expression is
upregulated in B cells by anti-Ig treatment that induces
Fas-resistance, and overexpression of FAIM diminishes
sensitivity to Fas-mediated apoptosis of B and non-B
cell lines. FAIM1 is highly evolutionarily conserved and
is widely expressed in murine tissues, suggesting that
FAIM plays an important role in cellular physiology.
Length = 178
Score = 141 bits (356), Expect = 9e-44
Identities = 57/124 (45%), Positives = 93/124 (75%), Gaps = 3/124 (2%)
Query: 1 MFRLVGEESFQLDS-KVPCLIKIEPSGPFGYAYSITVDGKTLEKF--SQSKANCTWIVTV 57
MF+LVG+E+F + + + I IE F Y Y++ +DGK+L+KF ++SK TW++ +
Sbjct: 46 MFKLVGKETFPVGASQTKATINIEAISGFAYEYTLEIDGKSLKKFTENRSKTTRTWLLKL 105
Query: 58 EDETYRVVLERGTLDIWVNGDRVDVTGEFVENGTETHFTIGDTPAYIKAVSSCNKKEGLL 117
+ + YRVVLE+ T+D+WVNG++++ GEFV++GTETHF++GD YIKA+SS NK+ G++
Sbjct: 106 DGQDYRVVLEKDTMDVWVNGEKMETAGEFVDDGTETHFSLGDHECYIKALSSGNKRNGIV 165
Query: 118 YSLI 121
++L+
Sbjct: 166 HTLL 169
Score = 25.9 bits (57), Expect = 5.9
Identities = 11/32 (34%), Positives = 16/32 (50%), Gaps = 4/32 (12%)
Query: 53 WIVTVEDETYRVVLERGTLD----IWVNGDRV 80
W V + D +R+ E GT I+V+G V
Sbjct: 9 WDVALSDGVHRIEFEHGTTSGKRVIYVDGKEV 40
>gnl|CDD|219618 pfam07883, Cupin_2, Cupin domain. This family represents the
conserved barrel domain of the 'cupin' superfamily
('cupa' is the Latin term for a small barrel).
Length = 70
Score = 29.1 bits (66), Expect = 0.19
Identities = 15/49 (30%), Positives = 22/49 (44%), Gaps = 5/49 (10%)
Query: 58 EDETYRVVLERGTLDIWVNGDRVDV-TGEFV--ENGTE-THFTIGDTPA 102
E + VLE G ++ V+G+ V + G+ V G GD PA
Sbjct: 17 PGEEFFYVLE-GEGELTVDGEEVVLKAGDSVYFPAGVPHRFRNTGDEPA 64
>gnl|CDD|148562 pfam07009, DUF1312, Protein of unknown function (DUF1312). This
family consists of several bacterial proteins of around
120 residues in length. The function of this family is
unknown.
Length = 113
Score = 26.8 bits (60), Expect = 2.0
Identities = 14/50 (28%), Positives = 21/50 (42%), Gaps = 7/50 (14%)
Query: 34 ITVDGKTLEKFSQSKANCTWIVTVEDETYRVVLERGTLDIWVNGDRVDVT 83
I VDGK ++ + SK + +T ++ G I V RV V
Sbjct: 31 IKVDGKVVKTINLSKVT-------KPQTIKIKGGLGYNIIEVKNGRVRVK 73
>gnl|CDD|222687 pfam14332, DUF4388, Domain of unknown function (DUF4388). This
domain family is found in bacteria, and is typically
between 102 and 135 amino acids in length.
Length = 102
Score = 26.5 bits (59), Expect = 2.1
Identities = 8/31 (25%), Positives = 12/31 (38%)
Query: 41 LEKFSQSKANCTWIVTVEDETYRVVLERGTL 71
L+ SQS+ VT R+ G +
Sbjct: 13 LQLLSQSRKTGVLEVTSPGGEGRLYFRDGRI 43
>gnl|CDD|197365 cd09911, Lin0431_like, Listerrria innocua Lin0431 is similar to
the N-Utilization Substance G (NusG) N terminal (NGN)
insert (DII). This family contains domains homologous
to Listeria innocua Lin0431, a protein that is similar
to the N-Utilization Substance G (NusG) N terminal
(NGN) insert (domain II, DII). Lin0431 and Aquifex
aeolicus NusG DII (AaeNusG DII ) have similar structure
and similar basic charged surface distributions that
may bind negatively charged nucleic acids and/or
another anionic binding partner, suggesting a possible
role in transcription/translation regulating functions.
Despite these two domains having low sequence
similarity, the NusG DII and DUF1312 domain families
may have diverged from common evolutionary ancestral
proteins, and may have similar biochemical functions.
Length = 82
Score = 25.9 bits (58), Expect = 2.7
Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 9/50 (18%)
Query: 34 ITVDGKTLEKFSQSKANCTWIVTVEDETYRVVLERGTLDIWVNGDRVDVT 83
ITVDGK + + + +DET + G I + +V +
Sbjct: 5 ITVDGKVYKTYP---------LDEKDETITIKTGGGYNIIEIKDGKVRMI 45
>gnl|CDD|221712 pfam12687, DUF3801, Protein of unknown function (DUF3801). This
family of proteins is functionally uncharacterized. This
family of proteins is found in bacteria. Proteins in
this family are typically between 158 and 187 amino
acids in length. This family includes the PcfB protein.
Length = 137
Score = 26.4 bits (59), Expect = 2.8
Identities = 10/40 (25%), Positives = 17/40 (42%), Gaps = 3/40 (7%)
Query: 88 ENGTETHFTIGDTPAYIKAVSSCNKKEGLLYSLISKLKTN 127
+ ++ I T +K KK G+ Y++ K K N
Sbjct: 35 QGRGLSNIEI--TDENLKKFKREAKKYGVDYAVK-KDKNN 71
>gnl|CDD|187618 cd05360, SDR_c3, classical (c) SDR, subgroup 3. These proteins are
members of the classical SDR family, with a canonical
active site triad (and also active site Asn) and a
typical Gly-rich NAD-binding motif. 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 have a
3-glycine N-terminal NAD(P)(H)-binding pattern
(typically, TGxxxGxG in classical SDRs and TGxxGxxG in
extended SDRs), while substrate binding is in the
C-terminal region. A critical catalytic Tyr residue
(Tyr-151, human 15-hydroxyprostaglandin dehydrogenase
(15-PGDH) numbering), is often found in a conserved
YXXXK pattern. In addition to the Tyr and Lys, there is
often an upstream Ser (Ser-138, 15-PGDH numbering)
and/or an Asn (Asn-107, 15-PGDH numbering) or additional
Ser, contributing to the active site. Substrates for
these enzymes include sugars, steroids, alcohols, and
aromatic compounds. The standard reaction mechanism is a
proton relay involving the conserved Tyr and Lys, as
well as Asn (or Ser). Some SDR family members, including
17 beta-hydroxysteroid dehydrogenase contain an
additional helix-turn-helix motif that is not generally
found among SDRs.
Length = 233
Score = 26.6 bits (59), Expect = 3.9
Identities = 13/38 (34%), Positives = 15/38 (39%)
Query: 57 VEDETYRVVLERGTLDIWVNGDRVDVTGEFVENGTETH 94
VE V G +D WVN V V G F + E
Sbjct: 64 VERAADTAVERFGRIDTWVNNAGVAVFGRFEDVTPEEF 101
>gnl|CDD|214719 smart00554, FAS1, Four repeated domains in the Fasciclin I family
of proteins, present in many other contexts.
Length = 97
Score = 25.4 bits (56), Expect = 6.0
Identities = 9/38 (23%), Positives = 15/38 (39%)
Query: 54 IVTVEDETYRVVLERGTLDIWVNGDRVDVTGEFVENGT 91
+ T+ R+ G+ + VNG R+ NG
Sbjct: 49 LPTLAGSKLRITRSGGSGTVTVNGARIVEADIAATNGV 86
>gnl|CDD|235935 PRK07109, PRK07109, short chain dehydrogenase; Provisional.
Length = 334
Score = 26.0 bits (58), Expect = 6.1
Identities = 11/26 (42%), Positives = 13/26 (50%)
Query: 63 RVVLERGTLDIWVNGDRVDVTGEFVE 88
R E G +D WVN V V G F +
Sbjct: 78 RAEEELGPIDTWVNNAMVTVFGPFED 103
>gnl|CDD|236533 PRK09474, malE, maltose ABC transporter periplasmic protein;
Reviewed.
Length = 396
Score = 26.1 bits (58), Expect = 6.9
Identities = 8/14 (57%), Positives = 11/14 (78%)
Query: 66 LERGTLDIWVNGDR 79
+E G L IW+NGD+
Sbjct: 28 IEEGKLVIWINGDK 41
>gnl|CDD|234285 TIGR03625, L3_bact, 50S ribosomal protein L3, bacterial. This
model describes bacterial (and mitochondrial and
chloroplast) class of ribosomal protein L3. A separate
model describes the archaeal form, where both belong to
Pfam family pfam00297. The name is phrased to meet the
needs of bacterial genome annotation. Organellar forms
typically will have transit peptides, N-terminal to the
region modeled here.
Length = 202
Score = 25.5 bits (57), Expect = 7.4
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 70 TLDIWVNGDRVDVTG 84
T+DI+ G +VDVTG
Sbjct: 95 TVDIFEAGQKVDVTG 109
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
0.316 0.135 0.399
Gapped
Lambda K H
0.267 0.0771 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 6,194,765
Number of extensions: 527954
Number of successful extensions: 459
Number of sequences better than 10.0: 1
Number of HSP's gapped: 455
Number of HSP's successfully gapped: 28
Length of query: 127
Length of database: 10,937,602
Length adjustment: 85
Effective length of query: 42
Effective length of database: 7,167,512
Effective search space: 301035504
Effective search space used: 301035504
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 (21.6 bits)
S2: 53 (24.1 bits)