RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy6106
(177 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 = 146 bits (371), Expect = 5e-46
Identities = 52/123 (42%), Positives = 69/123 (56%), Gaps = 8/123 (6%)
Query: 34 VGREFVRQYYTLLNQAPAHLHRFYSENSLFIHGGLDAPNRETKQVVGQEQIHEHIQQLNF 93
V + FV+QYY++ + LHR Y + S+ G KQV G++ I E + L F
Sbjct: 5 VAKAFVQQYYSIFDNNREGLHRLYGDTSMLSREG-------MKQVTGRDAIVEKLSSLPF 57
Query: 94 RDCHAKIRQVDSQATLGNGVVVQVSGELSNGGQPMRRFTQTFVLAAQSPKKYYVHNDIFR 153
+ KI VDSQ T GV+V V+G L QP R+F+QTFVLA Q Y+V NDIFR
Sbjct: 58 QKTKHKITTVDSQPTPSGGVIVMVTGSLKLDEQPPRKFSQTFVLAPQ-NGGYFVLNDIFR 116
Query: 154 YQD 156
+ D
Sbjct: 117 FVD 119
>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 = 112 bits (281), Expect = 1e-32
Identities = 47/124 (37%), Positives = 63/124 (50%), Gaps = 11/124 (8%)
Query: 34 VGREFVRQYYTLLNQ-APAHLHRFYS-ENSLFIHGGLDAPNRETKQVVGQEQIHEHIQQL 91
V FV++YY L+ P L Y + S+ G V G+E I+E L
Sbjct: 1 VALAFVQRYYAALDAGDPEGLAALYYDDASVEDPPGQS-------PVTGREAINEFFDSL 53
Query: 92 NFRDCHAKIRQVDSQ-ATLGNGVVVQVSGELSNGGQPMRRFTQTFVLAAQSPKKYYVHND 150
F I VD+Q A+ +GV+V V+GEL+ P RRF+QTF+L Q Y+V ND
Sbjct: 54 PFTRIQHLITSVDAQPASHSDGVLVMVTGELTVDDFPRRRFSQTFLLTPQR-GGYFVLND 112
Query: 151 IFRY 154
IFRY
Sbjct: 113 IFRY 116
>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 = 55.6 bits (134), Expect = 2e-10
Identities = 37/150 (24%), Positives = 54/150 (36%), Gaps = 33/150 (22%)
Query: 13 GREFVRQYYTLLNQAPAHLHRVGREFVRQYYTLLNQAPAHLHRFYSENSLFIHGGLDAPN 72
+F+ +Y LL+ L Y++++ F G +
Sbjct: 1 AEQFLYRYARLLDA---------------------GDREWLALLYADDAYFEPPG---GD 36
Query: 73 RETKQVVGQEQIHEHIQQLNF---RDCHAKIRQVDSQATL-GNGVVVQVSGELSNGG--- 125
G+E I + +++L F R H + VD Q G GVVV V G L G
Sbjct: 37 GLIYPDDGREAIEDRVRRLPFGPSRTRHL-VSNVDVQPGDDGEGVVVSVFGVLRTRGDGE 95
Query: 126 QPMRRFTQTFVLAAQSPKKYYVHNDIFRYQ 155
Q + QTFVL Q + N FR
Sbjct: 96 QDVFAGGQTFVLRPQ-GGGGKIANRRFRLD 124
>gnl|CDD|202456 pfam02898, NO_synthase, Nitric oxide synthase, oxygenase domain.
Length = 366
Score = 28.6 bits (64), Expect = 1.6
Identities = 8/24 (33%), Positives = 17/24 (70%), Gaps = 2/24 (8%)
Query: 14 REFVRQYYTLL--NQAPAHLHRVG 35
++F+ QYY+ + +++ AHL R+
Sbjct: 14 KDFINQYYSSIKRSKSEAHLARLE 37
Score = 27.8 bits (62), Expect = 3.6
Identities = 8/22 (36%), Positives = 16/22 (72%), Gaps = 2/22 (9%)
Query: 36 REFVRQYYTLL--NQAPAHLHR 55
++F+ QYY+ + +++ AHL R
Sbjct: 14 KDFINQYYSSIKRSKSEAHLAR 35
>gnl|CDD|182966 PRK11104, hemG, protoporphyrinogen oxidase; Provisional.
Length = 177
Score = 28.0 bits (63), Expect = 1.9
Identities = 12/31 (38%), Positives = 18/31 (58%), Gaps = 3/31 (9%)
Query: 30 HLHRVGREFVRQYYTLLNQAPAHLHRFYSEN 60
H H +FV+++ T LNQ P+ F+S N
Sbjct: 60 HFHSALYKFVKKHATQLNQMPSA---FFSVN 87
>gnl|CDD|178585 PLN03008, PLN03008, Phospholipase D delta.
Length = 868
Score = 28.5 bits (63), Expect = 2.5
Identities = 14/48 (29%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 58 SENSLFIHGGLDAPNRETKQVVGQEQIHEHIQQLNFRDCHAKIRQVDS 105
SE+ + +HG LD + +++ + EH+++L F C+A R D+
Sbjct: 6 SEDVMLLHGDLDLKIVKARRLPNMDMFSEHLRRL-FTACNACARPTDT 52
>gnl|CDD|224344 COG1427, COG1427, Predicted periplasmic solute-binding protein
[General function prediction only].
Length = 252
Score = 26.6 bits (59), Expect = 6.5
Identities = 9/39 (23%), Positives = 15/39 (38%)
Query: 12 VGREFVRQYYTLLNQAPAHLHRVGREFVRQYYTLLNQAP 50
+ R V +YYT + + + G E +Y L
Sbjct: 210 LPRSDVEEYYTNIRYSLGTEEQRGLERFYEYLGALRLKA 248
>gnl|CDD|227253 COG4916, COG4916, Uncharacterized protein containing a TIR
(Toll-Interleukin 1-resistance) domain [Function
unknown].
Length = 329
Score = 26.5 bits (58), Expect = 7.5
Identities = 18/62 (29%), Positives = 20/62 (32%), Gaps = 10/62 (16%)
Query: 91 LNFRDCHAKIRQVDSQ----------ATLGNGVVVQVSGELSNGGQPMRRFTQTFVLAAQ 140
L HA + VDS A +V QV E S P RRF V
Sbjct: 159 LLREPIHATVTVVDSSEKPVDSGISFAGEARNLVEQVQTEHSGLDIPTRRFYDLLVAHPL 218
Query: 141 SP 142
P
Sbjct: 219 YP 220
>gnl|CDD|177952 PLN02318, PLN02318, phosphoribulokinase/uridine kinase.
Length = 656
Score = 26.7 bits (59), Expect = 8.0
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 101 RQVDSQATLGNGVVVQVSGELSNGGQPMRRFT 132
R +S A L G + Q+S ++S+ + M FT
Sbjct: 486 RNSESPAALNQGAITQLSEQISSLNERMDEFT 517
>gnl|CDD|224297 COG1379, COG1379, PHP family phosphoesterase with a Zn ribbon
[General function prediction only].
Length = 403
Score = 26.3 bits (58), Expect = 9.4
Identities = 9/23 (39%), Positives = 12/23 (52%), Gaps = 3/23 (13%)
Query: 21 YTLLNQAPAH---LHRVGREFVR 40
L + AH HR+GREF +
Sbjct: 186 LPFLTNSDAHSPYPHRLGREFNQ 208
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 0.136 0.400
Gapped
Lambda K H
0.267 0.0758 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 9,072,775
Number of extensions: 814733
Number of successful extensions: 709
Number of sequences better than 10.0: 1
Number of HSP's gapped: 699
Number of HSP's successfully gapped: 20
Length of query: 177
Length of database: 10,937,602
Length adjustment: 91
Effective length of query: 86
Effective length of database: 6,901,388
Effective search space: 593519368
Effective search space used: 593519368
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: 56 (25.3 bits)