RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy9809
(237 letters)
>gnl|CDD|215838 pfam00287, Na_K-ATPase, Sodium / potassium ATPase beta chain.
Length = 289
Score = 89.8 bits (223), Expect = 2e-21
Identities = 62/262 (23%), Positives = 102/262 (38%), Gaps = 60/262 (22%)
Query: 1 MKVLLSTLNNHYPRWQLHESIIGTNPGLGYRPMPDDPDQGALIWFKANNHTNVQKWTRKI 60
+ V+L TL+++ P++Q +PGL RP +G I F ++ + Q++ +
Sbjct: 59 IWVMLQTLDDYTPKYQDR----VASPGLMIRPKVY---KGLEISFNVSDPKSWQEYVHTL 111
Query: 61 DDFLERLKNVLNFGHWAFKHTEKFQNITQIYGWEPQYYENIGELPPEIIYGWEPQYYENI 120
++FLE + K + F+N T P Y + G Q+
Sbjct: 112 NEFLE--------PYNDSKQSGNFENCT------PGKYFDQGPFGAPNGEKKACQF---- 153
Query: 121 GELPPEMPESLKK--HINDTALGD-------ILKM----------------QTVWVSCDG 155
E L +ND G ++KM + C G
Sbjct: 154 ------NREWLGNCSGLNDPTFGYSEGKPCVLIKMNRIIGFKPEPPKNYNSTAPPIHCTG 207
Query: 156 ESPADREHIGPVEIYPQHGT-PGYYYPYENKE---GYLSPVLAVHFKNPKLNTLINVDCR 211
+ D++ IG +E +P G YYPY K+ YL P++AV F N N + V+C+
Sbjct: 208 KRAEDKDRIGNIEYFPMGGGFDLMYYPYYGKKLQPNYLQPLVAVKFTNLTRNVEVRVECK 267
Query: 212 AWAKNIIYKKSLVNREGSVHFE 233
+A+NI G V F+
Sbjct: 268 IYAENIKNDDPRDRFLGRVEFK 289
>gnl|CDD|162204 TIGR01107, Na_K_ATPase_bet, Sodium Potassium ATPase beta subunit.
This model describes the Na+/K+ ATPase beta subunit in
eukaryotes. Na+/K+ ATPase(also called Sodium-Potassium
pump) is intimately associated with the plasma membrane.
It couples the energy released by the hydrolysis of ATP
to extrude 3 Na+ ions, with the concomitant uptake of
2K+ ions, against their ionic gradients [Transport and
binding proteins, Cations and iron carrying compounds].
Length = 289
Score = 65.1 bits (159), Expect = 2e-12
Identities = 60/258 (23%), Positives = 107/258 (41%), Gaps = 50/258 (19%)
Query: 1 MKVLLSTLNNHYPRWQLHESIIGTNPGLGYRPMPDDPDQGALIWFKANNHTNVQKWTRKI 60
++V+L T+++ P++Q + + +PGL RP Q I F ++ ++ + + + +
Sbjct: 58 IQVMLQTISDFTPKYQ--DRV--ASPGLTQRPKV----QKLEISFNVSDPSSYEGYVQNL 109
Query: 61 DDFLERLKNVLNFGHWAFKHTEKFQNITQIYGWEPQYYENIGELPPEIIYGWEPQYYENI 120
FL+ + + + G + YE G P +
Sbjct: 110 HKFLK-----------PYNDSAQEDKNLFDCG-DGAEYEQRGPFNA-------PYGTKKA 150
Query: 121 GELPPEMPESLKKHINDTALGD-------ILKMQTV-----------WVSCDGESPADRE 162
+ + + +ND G I+KM + V C G+ D E
Sbjct: 151 CQFKRDWLGNCSG-LNDPTFGYSEGKPCIIIKMNRIIGFKPKNPGVPPVDCTGKRDEDDE 209
Query: 163 HIGPVEIYPQHGT-PGYYYPYENKE---GYLSPVLAVHFKNPKLNTLINVDCRAWAKNII 218
+IG VE YP +G P Y+PY K+ YL P++AV F N +NT + ++C+ + +NI
Sbjct: 210 NIGNVEYYPMNGGFPLQYFPYYGKKLQPNYLQPLVAVQFTNLTMNTEVRIECKIYGENIA 269
Query: 219 YKKSLVNREGSVHFEIMV 236
Y G V F+I +
Sbjct: 270 YSNEKDRFLGRVDFKITI 287
>gnl|CDD|198170 smart01102, CRM1_C, CRM1 C terminal. CRM1 (also known as
Exportin1) mediates the nuclear export of proteins
bearing a leucine-rich nuclear export signal (NES). CRM1
forms a complex with the NES containing protein and the
small GTPase Ran. This region forms an alpha helical
structure formed by six helical hairpin motifs that are
structurally similar to the HEAT repeat, but share
little sequence similarity to the HEAT repeat.
Length = 321
Score = 31.2 bits (71), Expect = 0.47
Identities = 16/58 (27%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 65 ERLKNVLNFGHWAFKHTEKFQNITQIYGWE--PQYYENIGELPPEIIYGWEPQYYENI 120
E+ K V++ WAFKHT++ ++ G + N+ + +I + QYY +I
Sbjct: 161 EQFKLVIDSIVWAFKHTDR--DVADT-GLNILLELLNNVSKKDSQIANEFYKQYYFSI 215
>gnl|CDD|214497 smart00062, PBPb, Bacterial periplasmic substrate-binding proteins.
bacterial proteins, eukaryotic ones are in PBPe.
Length = 219
Score = 29.6 bits (67), Expect = 1.2
Identities = 9/46 (19%), Positives = 16/46 (34%), Gaps = 2/46 (4%)
Query: 24 TNPGLGYRPMPDDPDQGALIWFKANNHTNVQKWTRKIDDFLERLKN 69
+ + +PD D A + + KI+ L+ LK
Sbjct: 164 QHGLPELKIVPDPLDTPEGYAI-AVRKGD-PELLDKINKALKELKA 207
>gnl|CDD|236944 PRK11642, PRK11642, exoribonuclease R; Provisional.
Length = 813
Score = 30.1 bits (68), Expect = 1.3
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 107 EIIYGWEPQYYENIGELPPEMPESLKK 133
EI Y W + + L E+PE K
Sbjct: 232 EIPYIWPQAVEQQVAGLKEEVPEEAKA 258
>gnl|CDD|173955 cd08196, DHQS-like1, Dehydroquinate synthase (DHQS)-like. DHQS
catalyzes the conversion of DAHP to DHQ in shikimate
pathway for aromatic compounds synthesis.
Dehydroquinate synthase-like proteins. Dehydroquinate
synthase (DHQS) catalyzes the conversion of
3-deoxy-D-arabino-heptulosonate-7-phosphate (DAHP) to
dehydroquinate (DHQ) in the second step of the shikimate
pathway. This pathway involves seven sequential
enzymatic steps in the conversion of erythrose
4-phosphate and phosphoenolpyruvate into chorismate for
subsequent synthesis of aromatic compounds. The activity
of DHQS requires NAD as cofactor. Proteins of this
family share sequence similarity and functional motifs
with that of dehydroquinate synthase, but the specific
function has not been characterized.
Length = 346
Score = 29.3 bits (66), Expect = 1.9
Identities = 11/28 (39%), Positives = 19/28 (67%), Gaps = 1/28 (3%)
Query: 53 VQKWTRKIDDFLERLKNVLNFGHWAFKH 80
++KW +ID+F + + +LN+GH F H
Sbjct: 205 IKKWFIEIDEFDQGERLLLNYGH-TFGH 231
>gnl|CDD|188629 cd00344, FBP_aldolase_I, Fructose-bisphosphate aldolase class I.
Fructose-bisphosphate aldolase class I.
Fructose-1,6-bisphosphate aldolase is an enzyme of the
glycolytic and gluconeogenic pathways found in
vertebrates, plants, and bacteria. The enzyme catalyzes
the cleavage of fructose 1,6-bisphosphate to
glyceraldehyde 3-phosphate and dihydroxyacetone
phosphate (DHAP). Mutations in the aldolase genes in
humans cause hemolytic anemia and hereditary fructose
intolerance. The enzyme is a member of the class I
aldolase family, which utilizes covalent catalysis
through a Schiff base formed between a lysine residue of
the enzyme and ketose substrates. Although structurally
similar, the class II aldolases use a different
mechanism and are believed to have an independent
evolutionary origin.
Length = 328
Score = 28.2 bits (62), Expect = 3.9
Identities = 11/61 (18%), Positives = 21/61 (34%), Gaps = 1/61 (1%)
Query: 99 ENIGELPPEIIYGWEPQYYENIGELPPEMPESLKKHINDTALGDILKMQTVWVSCDGESP 158
E+ G + + EN ++ + +N G IL +T++ D P
Sbjct: 23 ESTGSIAKRLQSIGTENTEENRRFYR-QLLLTADDRVNPRIGGVILFHETLYQKADDGRP 81
Query: 159 A 159
Sbjct: 82 F 82
>gnl|CDD|101884 PRK05640, PRK05640, putative monovalent cation/H+ antiporter
subunit B; Reviewed.
Length = 151
Score = 27.5 bits (61), Expect = 4.5
Identities = 11/23 (47%), Positives = 16/23 (69%), Gaps = 2/23 (8%)
Query: 100 NIGELPPEIIYGWEPQYYENIGE 122
NIG L EI+ GW + Y+++GE
Sbjct: 112 NIGNLVSEILAGW--RLYDSVGE 132
>gnl|CDD|236798 PRK10929, PRK10929, putative mechanosensitive channel protein;
Provisional.
Length = 1109
Score = 28.1 bits (63), Expect = 4.6
Identities = 15/61 (24%), Positives = 26/61 (42%), Gaps = 18/61 (29%)
Query: 54 QKWTRKIDDFLERLKNVLNF-----GHWAFKHTEKFQNITQIYGWEPQYYENIGELPPEI 108
+K ++++D +L+ L+N LN A + TE E G+LP I
Sbjct: 214 KKRSQQLDAYLQALRNQLNSQRQREAERALESTELLA-------------EQSGDLPKSI 260
Query: 109 I 109
+
Sbjct: 261 V 261
>gnl|CDD|107069 PHA01756, PHA01756, hypothetical protein.
Length = 268
Score = 28.0 bits (62), Expect = 4.8
Identities = 15/40 (37%), Positives = 16/40 (40%)
Query: 84 FQNITQIYGWEPQYYENIGELPPEIIYGWEPQYYENIGEL 123
Q I QI Q Y +I LP EI Y Y I L
Sbjct: 92 NQQINQILYSNQQLYYSISNLPKEISYDLYVNLYRTISSL 131
>gnl|CDD|235268 PRK04282, PRK04282, exosome complex RNA-binding protein Rrp42;
Provisional.
Length = 271
Score = 27.5 bits (62), Expect = 5.2
Identities = 9/23 (39%), Positives = 13/23 (56%), Gaps = 1/23 (4%)
Query: 21 IIGTNPGLGYRPMPDDPDQGALI 43
+ G +G P PD P++G LI
Sbjct: 61 LAGVKLEIG-EPFPDTPNEGVLI 82
>gnl|CDD|240659 cd12183, LDH_like_2, D-Lactate and related Dehydrogenases,
NAD-binding and catalytic domains. D-Lactate
dehydrogenase (LDH) catalyzes the interconversion of
pyruvate and lactate, and is a member of the
2-hydroxyacid dehydrogenase family. LDH is homologous to
D-2-hydroxyisocaproic acid dehydrogenase (D-HicDH) and
shares the 2-domain structure of formate dehydrogenase.
D-2-hydroxyisocaproate dehydrogenase-like (HicDH)
proteins are NAD-dependent members of the
hydroxycarboxylate dehydrogenase family, and share the
Rossmann fold typical of many NAD binding proteins.
HicDH from Lactobacillus casei forms a monomer and
catalyzes the reaction R-CO-COO(-) + NADH + H+ to
R-COH-COO(-) + NAD+. D-HicDH, like the structurally
distinct L-HicDH, exhibits low side-chain R specificity,
accepting a wide range of 2-oxocarboxylic acid side
chains. Formate/glycerate and related dehydrogenases of
the D-specific 2-hydroxyacid dehydrogenase superfamily
include groups such as formate dehydrogenase, glycerate
dehydrogenase, L-alanine dehydrogenase, and
S-adenosylhomocysteine hydrolase. Despite often low
sequence identity, these proteins typically have a
characteristic arrangement of 2 similar subdomains of
the alpha/beta Rossmann fold NAD+ binding form. The NAD+
binding domain is inserted within the linear sequence of
the mostly N-terminal catalytic domain, which has a
similar domain structure to the internal NAD binding
domain. Structurally, these domains are connected by
extended alpha helices and create a cleft in which NAD
is bound, primarily to the C-terminal portion of the 2nd
(internal) domain.
Length = 328
Score = 27.0 bits (61), Expect = 8.7
Identities = 15/33 (45%), Positives = 16/33 (48%), Gaps = 3/33 (9%)
Query: 61 DDFLERL---KNVLNFGHWAFKHTEKFQNITQI 90
DD L RL NVL GH AF E NI +
Sbjct: 278 DDVLARLLSFPNVLITGHQAFFTKEALTNIAET 310
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
0.318 0.139 0.452
Gapped
Lambda K H
0.267 0.0699 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,702,493
Number of extensions: 1194961
Number of successful extensions: 1108
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1102
Number of HSP's successfully gapped: 25
Length of query: 237
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 143
Effective length of database: 6,768,326
Effective search space: 967870618
Effective search space used: 967870618
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: 57 (25.8 bits)