RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4124
(99 letters)
>gnl|CDD|238403 cd00780, NTF2, Nuclear transport factor 2 (NTF2) domain plays an
important role in the trafficking of macromolecules,
ions and small molecules between the cytoplasm and
nucleus. This bi-directional transport of macromolecules
across the nuclear envelope requires many soluble
factors that includes GDP-binding protein Ran (RanGDP).
RanGDP is required for both import and export of
proteins and poly(A) RNA. RanGDP also has been
implicated in cell cycle control, specifically in
mitotic spindle assembly. In interphase cells, RanGDP is
predominately nuclear and thought to be GTP bound, but
it is also present in the cytoplasm, probably in the
GDP-bound state. NTF2 mediates the nuclear import of
RanGDP. NTF2 binds to both RanGDP and FxFG
repeat-containing nucleoporins.
Length = 119
Score = 63.5 bits (155), Expect = 1e-14
Identities = 34/119 (28%), Positives = 51/119 (42%), Gaps = 37/119 (31%)
Query: 9 YEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSFMTFEGIQL-QGAVKIMEKFN----- 62
E + K FVQQYY++FD+ R L +Y +TS ++ EG++ G I+EK +
Sbjct: 2 AEDVAKAFVQQYYSIFDN--NREGLHRLY-GDTSMLSREGMKQVTGRDAIVEKLSSLPFQ 58
Query: 63 ----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
D+ PP +SQ FVL P ++ +DIFR
Sbjct: 59 KTKHKITTVDSQPTPSGGVIVMVTGSLKLDEQPPRKFSQTFVLAPQNGGYFVLNDIFRF 117
>gnl|CDD|216894 pfam02136, NTF2, Nuclear transport factor 2 (NTF2) domain. This
family includes the NTF2-like Delta-5-3-ketosteroid
isomerase proteins.
Length = 116
Score = 55.1 bits (133), Expect = 2e-11
Identities = 29/119 (24%), Positives = 40/119 (33%), Gaps = 40/119 (33%)
Query: 12 IGKGFVQQYYALFD--DPAQRPNLINMYNTETSFMTFEG-IQLQGAVKIMEKFN------ 62
+ FVQ+YYA D DP L +Y + S G + G I E F+
Sbjct: 1 VALAFVQRYYAALDAGDPEG---LAALYYDDASVEDPPGQSPVTGREAINEFFDSLPFTR 57
Query: 63 ----------------------------CDDDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
DD P +SQ F+L P ++ +DIFR
Sbjct: 58 IQHLITSVDAQPASHSDGVLVMVTGELTVDDFPRRRFSQTFLLTPQRGGYFVLNDIFRY 116
>gnl|CDD|233849 TIGR02401, trehalose_TreY, malto-oligosyltrehalose synthase. This
enzyme, formally named (1->4)-alpha-D-glucan
1-alpha-D-glucosylmutase, is the TreY enzyme of the
TreYZ pathway of trehalose biosynthesis, an alternative
to the OtsAB pathway. Trehalose may be incorporated into
more complex compounds but is best known as compatible
solute. It is one of the most effective osmoprotectants,
and unlike the various betaines does not require
nitrogen for its synthesis [Energy metabolism,
Biosynthesis and degradation of polysaccharides].
Length = 825
Score = 29.7 bits (67), Expect = 0.20
Identities = 11/38 (28%), Positives = 13/38 (34%), Gaps = 3/38 (7%)
Query: 6 NPAYEAIGKGFVQQYYALFDDPAQRPNLINMYNTETSF 43
N AYE FV + D PA L + E
Sbjct: 605 NEAYETAVADFVDA---VLDPPAGSLFLTDFVAREKKL 639
>gnl|CDD|238296 cd00531, NTF2_like, Nuclear transport factor 2 (NTF2-like)
superfamily. This family includes members of the NTF2
family, Delta-5-3-ketosteroid isomerases, Scytalone
Dehydratases, and the beta subunit of Ring hydroxylating
dioxygenases. This family is a classic example of
divergent evolution wherein the proteins have many
common structural details but diverge greatly in their
function. For example, nuclear transport factor 2
(NTF2) mediates the nuclear import of RanGDP and binds
to both RanGDP and FxFG repeat-containing nucleoporins
while Ketosteroid isomerases catalyze the isomerization
of delta-5-3-ketosteroid to delta-4-3-ketosteroid, by
intramolecular transfer of the C4-beta proton to the
C6-beta position. While the function of the beta
sub-unit of the Ring hydroxylating dioxygenases is not
known, Scytalone Dehydratases catalyzes two reactions in
the biosynthetic pathway that produces fungal melanin.
Members of the NTF2-like superfamily are widely
distributed among bacteria, archaea and eukaryotes.
Length = 124
Score = 27.5 bits (61), Expect = 0.73
Identities = 10/29 (34%), Positives = 13/29 (44%)
Query: 65 DDPPHAYSQIFVLKPLGASFYCQHDIFRL 93
+ A Q FVL+P G + FRL
Sbjct: 95 EQDVFAGGQTFVLRPQGGGGKIANRRFRL 123
>gnl|CDD|234719 PRK00300, gmk, guanylate kinase; Provisional.
Length = 205
Score = 27.4 bits (62), Expect = 1.2
Identities = 13/34 (38%), Positives = 17/34 (50%), Gaps = 8/34 (23%)
Query: 46 FEGIQLQGAVKIMEKFNCDDDPPHAYSQIFVLKP 79
E I QGA ++ +K P A S IF+L P
Sbjct: 100 LE-IDWQGARQVKKKM------PDAVS-IFILPP 125
>gnl|CDD|217661 pfam03656, Pam16, Pam16. The Pam16 protein is the fifth essential
subunit of the pre-sequence translocase-associated
protein import motor (PAM). In Saccharomyces cerevisiae,
Pam16 is required for preprotein translocation into the
matrix, but not for protein insertion into the inner
membrane. Pam16 has a degenerate J domain. J-domain
proteins play important regulatory roles as
co-chaperones, recruiting Hsp70 partners and
accelerating the ATP-hydrolysis step of the chaperone
cycle. Pam16's J-like domain strongly interacts with
Pam18's J domain, leading to a productive interaction of
Pam18 with mtHsp70 at the mitochondria import channel.
Pam18 stimulates the ATPase activity of mtHsp70.
Length = 127
Score = 26.8 bits (59), Expect = 1.4
Identities = 24/93 (25%), Positives = 38/93 (40%), Gaps = 11/93 (11%)
Query: 8 AYEAIGKGFVQQYYALFDDPAQR---PNLINMYNTETSFMTFEGIQLQGAVKIM---EKF 61
+ +GK F + Y AQR N T+ + GI L + +I+ E
Sbjct: 13 GTQVVGKAFARAYRQEA--AAQRVAAGAGTNASRRGTAKSNYGGISLDESCQILNVEEDL 70
Query: 62 NCDDDPPHAYSQIFVL--KPLGASFYCQHDIFR 92
N ++ Y +F + K G SFY Q ++R
Sbjct: 71 NMEEVNKR-YEHLFEVNDKSKGGSFYLQSKVYR 102
>gnl|CDD|99736 cd00611, PSAT_like, Phosphoserine aminotransferase (PSAT) family.
This family belongs to pyridoxal phosphate
(PLP)-dependent aspartate aminotransferase superfamily
(fold I). The major group in this CD corresponds to
phosphoserine aminotransferase (PSAT). PSAT is active
as a dimer and catalyzes the conversion of
phosphohydroxypyruvate to phosphoserine.
Length = 355
Score = 26.5 bits (59), Expect = 2.4
Identities = 11/33 (33%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 36 MYNTETSF------MTFEGIQLQGAVKIMEKFN 62
+YNT +F + + ++ QG V+ MEK N
Sbjct: 232 LYNTPPTFAIYMMGLVLKWLKEQGGVEAMEKRN 264
>gnl|CDD|235428 PRK05355, PRK05355, 3-phosphoserine/phosphohydroxythreonine
aminotransferase; Provisional.
Length = 360
Score = 26.2 bits (59), Expect = 2.7
Identities = 13/33 (39%), Positives = 18/33 (54%), Gaps = 6/33 (18%)
Query: 36 MYNTETSF------MTFEGIQLQGAVKIMEKFN 62
MYNT +F + F+ ++ QG V MEK N
Sbjct: 235 MYNTPPTFAIYLAGLVFKWLKEQGGVAAMEKRN 267
>gnl|CDD|183280 PRK11701, phnK, phosphonate C-P lyase system protein PhnK;
Provisional.
Length = 258
Score = 25.7 bits (57), Expect = 4.0
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 65 DDPPHAYSQIFV 76
DDP H Y+Q+ V
Sbjct: 241 DDPQHPYTQLLV 252
>gnl|CDD|130431 TIGR01364, serC_1, phosphoserine aminotransferase. This model
represents the common form of the phosphoserine
aminotransferase SerC. The phosphoserine
aminotransferase of the archaeon Methanosarcina barkeri
and putative phosphoserine aminotransferase of
Mycobacterium tuberculosis are represented by separate
models. All are members of the class V aminotransferases
(pfam00266) [Amino acid biosynthesis, Serine family].
Length = 349
Score = 25.7 bits (57), Expect = 4.3
Identities = 13/33 (39%), Positives = 19/33 (57%), Gaps = 6/33 (18%)
Query: 36 MYNTETSF------MTFEGIQLQGAVKIMEKFN 62
MYNT +F + F+ ++ QG VK +EK N
Sbjct: 224 MYNTPPTFAIYVSGLVFKWLKEQGGVKAIEKRN 256
>gnl|CDD|237490 PRK13755, PRK13755, putative mercury transport protein MerC;
Provisional.
Length = 139
Score = 25.4 bits (56), Expect = 4.9
Identities = 9/14 (64%), Positives = 10/14 (71%)
Query: 11 AIGKGFVQQYYALF 24
AIG GF+ QY LF
Sbjct: 36 AIGLGFLSQYEGLF 49
>gnl|CDD|213788 TIGR03263, guanyl_kin, guanylate kinase. Members of this family
are the enzyme guanylate kinase, also called GMP kinase.
This enzyme transfers a phosphate from ATP to GMP,
yielding ADP and GDP [Purines, pyrimidines, nucleosides,
and nucleotides, Nucleotide and nucleoside
interconversions].
Length = 179
Score = 25.5 bits (57), Expect = 5.2
Identities = 13/31 (41%), Positives = 18/31 (58%), Gaps = 7/31 (22%)
Query: 49 IQLQGAVKIMEKFNCDDDPPHAYSQIFVLKP 79
I +QGA ++ +KF P A S IF+L P
Sbjct: 97 IDVQGARQVKKKF------PDAVS-IFILPP 120
>gnl|CDD|235375 PRK05253, PRK05253, sulfate adenylyltransferase subunit 2;
Provisional.
Length = 301
Score = 25.5 bits (57), Expect = 5.7
Identities = 9/15 (60%), Positives = 10/15 (66%), Gaps = 1/15 (6%)
Query: 26 DP-AQRPNLINMYNT 39
DP QRP L N+YN
Sbjct: 159 DPKNQRPELWNLYNG 173
>gnl|CDD|238153 cd00249, AGE, AGE domain; N-acyl-D-glucosamine 2-epimerase domain;
Responsible for intermediate epimerization during
biosynthesis of N-acetylneuraminic acid. Catalytic
mechanism is believed to be via nucleotide elimination
and readdition and is ATP modulated. AGE is structurally
and mechanistically distinct from the other four types
of epimerases. The AGE domain monomer is composed of an
alpha(6)/alpha(6)-barrel, the structure of which is also
found in glucoamylase and cellulase. The active form is
a homodimer. The alignment also contains subtype III
mannose 6-phosphate isomerases.
Length = 384
Score = 25.0 bits (55), Expect = 7.4
Identities = 5/13 (38%), Positives = 5/13 (38%)
Query: 65 DDPPHAYSQIFVL 77
D YS F L
Sbjct: 109 DATKDLYSHAFAL 121
>gnl|CDD|178071 PLN02452, PLN02452, phosphoserine transaminase.
Length = 365
Score = 25.0 bits (55), Expect = 7.8
Identities = 13/34 (38%), Positives = 18/34 (52%), Gaps = 6/34 (17%)
Query: 35 NMYNTETSF------MTFEGIQLQGAVKIMEKFN 62
++YNT F + FE + QG +K MEK N
Sbjct: 238 SLYNTPPCFGIYMCGLVFEDLLAQGGLKAMEKRN 271
>gnl|CDD|236873 PRK11186, PRK11186, carboxy-terminal protease; Provisional.
Length = 667
Score = 24.9 bits (55), Expect = 9.2
Identities = 8/21 (38%), Positives = 9/21 (42%), Gaps = 6/21 (28%)
Query: 13 GKGFVQQY------YALFDDP 27
GKG VQQ+ Y P
Sbjct: 474 GKGTVQQHRSLNRIYDQMLRP 494
>gnl|CDD|225501 COG2951, MltB, Membrane-bound lytic murein transglycosylase B [Cell
envelope biogenesis, outer membrane].
Length = 343
Score = 24.6 bits (54), Expect = 9.3
Identities = 14/53 (26%), Positives = 23/53 (43%), Gaps = 5/53 (9%)
Query: 1 MSSQLNPAYEAIGKGFVQQYYALFDDPAQR-----PNLINMYNTETSFMTFEG 48
+ +++ A G+GF QY A +R P L+ ++ ET F G
Sbjct: 93 SARRISEARVQQGRGFPAQYAAALARAERRYGVPAPILVAIWGMETGFGRVMG 145
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
0.323 0.139 0.426
Gapped
Lambda K H
0.267 0.0574 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 5,038,961
Number of extensions: 402729
Number of successful extensions: 263
Number of sequences better than 10.0: 1
Number of HSP's gapped: 261
Number of HSP's successfully gapped: 21
Length of query: 99
Length of database: 10,937,602
Length adjustment: 65
Effective length of query: 34
Effective length of database: 8,054,592
Effective search space: 273856128
Effective search space used: 273856128
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (24.5 bits)