RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy2047
(233 letters)
>gnl|CDD|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase
chain; Provisional.
Length = 1033
Score = 92.9 bits (231), Expect = 1e-21
Identities = 66/207 (31%), Positives = 91/207 (43%), Gaps = 52/207 (25%)
Query: 22 EVEQVDQAKRIISPFMLRRLKKDVLTELPKKTALVIKVPMIPSQAEKYRGLMEDFKKTAN 81
+ E V Q +++ PF+LRRLK DV LP K ++KV M Q + Y+ L++ N
Sbjct: 367 QQEVVQQLHKVLRPFLLRRLKSDVEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVN 426
Query: 82 PEGSNRSNEISHMSMFMMLRKMANHPLGLRYYFQENTLREIADCLVEDPTYKGTNPQYIL 141
G R +++ M LRK NHP Y FQ G P
Sbjct: 427 -AGGERKR---LLNIAMQLRKCCNHP----YLFQ------------------GAEPG--- 457
Query: 142 EDISWLSDYDIHQLSLKHKTLDCAKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFS 201
Y + LV SGK+ LD++LP LK+ RVLIFS
Sbjct: 458 -----------------------PPYTTGEHLVENSGKMVLLDKLLPKLKERDSRVLIFS 494
Query: 202 QFIFVLDILGHYMDIRGWRHLRLDGAT 228
Q +LDIL Y+ RG+++ R+DG T
Sbjct: 495 QMTRLLDILEDYLMYRGYQYCRIDGNT 521
>gnl|CDD|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family
[Transcription / DNA replication, recombination, and
repair].
Length = 866
Score = 83.2 bits (205), Expect = 2e-18
Identities = 69/244 (28%), Positives = 107/244 (43%), Gaps = 51/244 (20%)
Query: 5 SEDDARYEDKRKEQATFEVEQVDQAKRIISPFMLRRLKKD--VLTELPKKTALVIKVPMI 62
+ ED +A ++ ++++SPF+LRR K+D VL ELP K V++ +
Sbjct: 543 EKPIQAEEDIGPLEAREL--GIELLRKLLSPFILRRTKEDVEVLKELPPKIEKVLECELS 600
Query: 63 PSQAEKYRGL----------MEDFKKTANPEGSNRSNEISHMSMFMMLRKMANHPLGLRY 112
Q E Y L +ED +K + E +E++ +++ LR++ NHP
Sbjct: 601 EEQRELYEALLEGAEKNQQLLEDLEKADSDENRIGDSELNILALLTRLRQICNHP----- 655
Query: 113 YFQENTLREIADCLVEDPTYKGTNPQYILEDISWLSDYDIHQLSLKHKTLDCAKYKVPDD 172
LV++ + +L DY L K
Sbjct: 656 ------------ALVDEGLEATFDRIVLLLREDKDFDYLKKPLIQLSK------------ 691
Query: 173 LVVESGKLKKLDEILPD-LKKNGH--RVLIFSQFIFVLDILGHYMDIRGWRHLRLDGATQ 229
GKL+ LDE+L D L + GH +VLIFSQF VLD+L Y+ G +++RLDG+T
Sbjct: 692 -----GKLQALDELLLDKLLEEGHYHKVLIFSQFTPVLDLLEDYLKALGIKYVRLDGSTP 746
Query: 230 VSSR 233
R
Sbjct: 747 AKRR 750
>gnl|CDD|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain. This domain is
found in proteins involved in a variety of processes
including transcription regulation (e.g., SNF2, STH1,
brahma, MOT1), DNA repair (e.g. ERCC6, RAD16, RAD5), DNA
recombination (e.g. RAD54), and chromatin unwinding
(e.g. ISWI) as well as a variety of other proteins with
little functional information (e.g. lodestar, ETL1).
Length = 301
Score = 65.5 bits (160), Expect = 1e-12
Identities = 27/87 (31%), Positives = 48/87 (55%), Gaps = 3/87 (3%)
Query: 24 EQVDQAKRIISPFMLRRLKKDVLTELPKKTALVIKVPMIPSQAEKYRGLMEDFKKTANP- 82
E +++ +++ PF+LRR K DV LP KT V+ + Q + Y+ L+ + +
Sbjct: 212 EGINRLHKLLKPFLLRRTKDDVEKSLPPKTEHVLYCNLSDEQRKLYKKLLTKRRLALSFA 271
Query: 83 -EGSNRSNEISH-MSMFMMLRKMANHP 107
EG ++ I+ +++ M LRK+ NHP
Sbjct: 272 VEGGEKNVGIASLLNLIMQLRKICNHP 298
>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated
with DEXDc-, DEAD-, and DEAH-box proteins, yeast
initiation factor 4A, Ski2p, and Hepatitis C virus NS3
helicases; this domain is found in a wide variety of
helicases and helicase related proteins; may not be an
autonomously folding unit, but an integral part of the
helicase; 4 helicase superfamilies at present according
to the organization of their signature motifs; all
helicases share the ability to unwind nucleic acid
duplexes with a distinct directional polarity; they
utilize the free energy from nucleoside triphosphate
hydrolysis to fuel their translocation along DNA,
unwinding the duplex in the process.
Length = 131
Score = 36.8 bits (86), Expect = 0.002
Identities = 21/59 (35%), Positives = 30/59 (50%), Gaps = 2/59 (3%)
Query: 173 LVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYMDIRGWR--HLRLDGATQ 229
L VE KL+ L E+L + K G +VLIF +LD L + G + L DG+ +
Sbjct: 7 LPVEDEKLEALLELLKEHLKKGGKVLIFCPSKKMLDELAELLRKPGIKVAALHGDGSQE 65
>gnl|CDD|180775 PRK06954, PRK06954, acetyl-CoA acetyltransferase; Provisional.
Length = 397
Score = 32.2 bits (73), Expect = 0.24
Identities = 30/124 (24%), Positives = 46/124 (37%), Gaps = 24/124 (19%)
Query: 1 MDSDSED-DARYEDKRKEQATFEVEQVDQAKRI---------ISPFMLRRLKKDVLT--- 47
M + +E+ Y R+ Q F +E + +AKR I+P + K D +
Sbjct: 163 MGTFAEECAGEYGFTREAQDAFAIESLARAKRANEDGSFAWEIAPVTVAGKKGDTVIDRD 222
Query: 48 ELPKKTALVIKVPMIPSQAEKYRGLMEDFKKTANPEGSNRSNEISHMSMFMMLRKMANHP 107
E P K IP+ L F KT +N S+ + +M+R
Sbjct: 223 EQPFK----ANPEKIPT-------LKPAFSKTGTVTAANSSSISDGAAALVMMRASTAKR 271
Query: 108 LGLR 111
LGL
Sbjct: 272 LGLA 275
>gnl|CDD|240273 PTZ00110, PTZ00110, helicase; Provisional.
Length = 545
Score = 29.7 bits (67), Expect = 1.3
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 172 DLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHYMDIRGWRHLRLDG 226
+V E K KL +L + ++G ++LIF + D L + + GW L + G
Sbjct: 355 FVVEEHEKRGKLKMLLQRIMRDGDKILIFVETKKGADFLTKELRLDGWPALCIHG 409
>gnl|CDD|223050 PHA03335, PHA03335, hypothetical protein; Provisional.
Length = 385
Score = 29.2 bits (65), Expect = 2.1
Identities = 14/78 (17%), Positives = 30/78 (38%), Gaps = 4/78 (5%)
Query: 40 RLKKDVLTELPKKTALVIKVPMIPSQAEKYRGLMEDFKKTANPEGSNRSNEISHMSMFMM 99
++ D++ + L + + P RG+M ++ G NR +I+ + +
Sbjct: 179 QVVVDIMRRRTVEDPLDLIPTIYPWTLPILRGIMSQLQRNIWAGGQNRKEKITELVEELA 238
Query: 100 LRKM----ANHPLGLRYY 113
K H + L Y+
Sbjct: 239 KVKRGAANLEHTMCLIYH 256
>gnl|CDD|223194 COG0116, COG0116, Predicted N6-adenine-specific DNA methylase [DNA
replication, recombination, and repair].
Length = 381
Score = 28.8 bits (65), Expect = 2.5
Identities = 13/54 (24%), Positives = 22/54 (40%), Gaps = 7/54 (12%)
Query: 172 DLVVESGKLK-----KLDEILPDLKKNGHRVLIFSQFIFVLDILGHYMDIRGWR 220
D +V+ + K +D PD++ N L +D G + RG+R
Sbjct: 116 DAIVDRFRRKYGRRPSVDLDGPDVRINVE--LDKDTATLGIDTTGDSLHKRGYR 167
>gnl|CDD|212061 cd11492, SLC5sbd_NIS-SMVT, Na(+)/iodide (NIS) and
Na(+)/multivitamin (SMVT) cotransporters, and related
proteins; solute binding domain. NIS (encoded by the
SLC5A5 gene) transports I-, and other anions including
ClO4-, SCN-, and Br-. SMVT (encoded by the SLC5A6 gene)
transports biotin, pantothenic acid and lipoate. This
subfamily also includes SMCT1 and -2. SMCT1(encoded by
the SLC5A8 gene) is a high-affinity transporter of
various monocarboxylates including lactate and pyruvate,
short-chain fatty acids, ketone bodies, nicotinate and
its structural analogs, pyroglutamate, benzoate and its
derivatives, and iodide. SMCT2 (encoded by the SLC5A12
gene) is a low-affinity transporter for short-chain
fatty acids, lactate, pyruvate, and nicotinate. This
subgroup belongs to the solute carrier 5 (SLC5)
transporter family.
Length = 522
Score = 28.6 bits (65), Expect = 2.7
Identities = 17/49 (34%), Positives = 22/49 (44%), Gaps = 17/49 (34%)
Query: 165 AKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFSQFIFVLDILGHY 213
AKY D L +G + K D++LP FV+DILGH
Sbjct: 291 AKYHDCDPL--TAGLISKPDQLLP---------------YFVMDILGHL 322
>gnl|CDD|173933 cd08174, G1PDH-like, Glycerol-1-phosphate dehydrogenase-like.
Glycerol-1-phosphate dehydrogenase-like. The proteins of
this family have not been characterized. The protein
sequences have high similarity with that of
glycerol-1-phosphate dehydrogenase (G1PDH). G1PDH plays
a role in the synthesis of phosphoglycerolipids in
Gram-positive bacterial species. It catalyzes the
reversibly reduction of dihydroxyacetone phosphate
(DHAP) to glycerol-1-phosphate (G1P) in a NADH-dependent
manner. Its activity requires Ni++ ion. This family is
bacteria specific.
Length = 331
Score = 28.8 bits (65), Expect = 2.7
Identities = 11/32 (34%), Positives = 16/32 (50%)
Query: 170 PDDLVVESGKLKKLDEILPDLKKNGHRVLIFS 201
P L + G + +L E+L D N RV + S
Sbjct: 1 PLVLDIGEGAIARLGELLSDRNPNFGRVAVVS 32
>gnl|CDD|185019 PRK15059, PRK15059, tartronate semialdehyde reductase; Provisional.
Length = 292
Score = 28.4 bits (63), Expect = 3.4
Identities = 22/89 (24%), Positives = 36/89 (40%), Gaps = 12/89 (13%)
Query: 21 FEVEQVDQAKRIISP-FMLRRLKKDVLTELPKKTALVIKVPMIPSQAEKYRGLMEDFKKT 79
EV KR +P F + +KD+ L AL + +P + E +
Sbjct: 214 LEVHGERMIKRTFNPGFKIALHQKDLNLALQSAKALALNLPNTATCQELF---------- 263
Query: 80 ANPEGSNRSNEISHMSMFMMLRKMANHPL 108
N +N +++ H ++ L MANH L
Sbjct: 264 -NTCAANGGSQLDHSALVQALELMANHKL 291
>gnl|CDD|178359 PLN02759, PLN02759, Formate--tetrahydrofolate ligase.
Length = 637
Score = 28.2 bits (63), Expect = 3.9
Identities = 13/40 (32%), Positives = 19/40 (47%), Gaps = 4/40 (10%)
Query: 8 DAR--YEDKRKEQATFE--VEQVDQAKRIISPFMLRRLKK 43
D R +E + ++A F + KR + M RRLKK
Sbjct: 161 DTRVFHEATQSDKALFNRLCPANKEGKRSFAAVMFRRLKK 200
>gnl|CDD|152729 pfam12294, DUF3626, Protein of unknown function (DUF3626). This
family of proteins is found in bacteria. Proteins in
this family are typically between 294 and 374 amino
acids in length.
Length = 297
Score = 27.8 bits (62), Expect = 4.7
Identities = 17/54 (31%), Positives = 22/54 (40%), Gaps = 4/54 (7%)
Query: 119 LREIADCLVEDPTYKGTNPQYILEDISWLSDYDIHQLSLKHKTLDCAKYKVPDD 172
L E + LV DP++KGT L ++ Y I L VPDD
Sbjct: 187 LAEDIEALVADPSFKGTPIGRSLNELC--ERYGIDLQWHCGFRLAVD--DVPDD 236
>gnl|CDD|213304 cd05938, hsFATP2a_ACSVL_like, Fatty acid transport proteins (FATP)
including hsFATP2, hsFATP5, and hsFATP6, and similar
proteins. Fatty acid transport proteins (FATP) of this
family transport long-chain or very-long-chain fatty
acids across the plasma membrane. At least five copies
of FATPs are identified in mammalian cells. This family
includes hsFATP2, hsFATP5, and hsFATP6, and similar
proteins. Each FATP has unique patterns of tissue
distribution. These FATPs also have fatty acid CoA
synthetase activity, thus playing dual roles as fatty
acid transporters and its activation enzymes. The hsFATP
proteins exist in two splice variants; the b variant,
lacking exon 3, has no acyl-CoA synthetase activity.
FATPs are key players in the trafficking of exogenous
fatty acids into the cell and in intracellular fatty
acid homeostasis.
Length = 535
Score = 27.7 bits (62), Expect = 5.2
Identities = 19/58 (32%), Positives = 29/58 (50%), Gaps = 5/58 (8%)
Query: 144 ISWLSDYDIHQLSLKHKTLDCAKYKVPDDLVVESGKLKKLDEILPDLKKNGHRVLIFS 201
++L + +I SL H C +V LV + L+ ++EILP L+ G RV S
Sbjct: 56 TAFL-NTNIRSGSLLH-CFRCCGARV---LVADPELLEAVEEILPALRAMGVRVFYLS 108
>gnl|CDD|191916 pfam07982, Herpes_UL74, Herpes UL74 glycoproteins. Members of
this family are viral glycoproteins that form part of
an envelope complex.
Length = 417
Score = 27.7 bits (61), Expect = 5.4
Identities = 17/59 (28%), Positives = 28/59 (47%), Gaps = 2/59 (3%)
Query: 38 LRRLKKDVLTELPKKTALVIKVPMIPSQAEKYRGL--MEDFKKTANPEGSNRSNEISHM 94
R+LK ++L +L K+ K PSQ + Y M+ F G R++ I+H+
Sbjct: 11 ERKLKLEILKQLASKSGDYYKFFTFPSQQKLYNITVEMKQFPPNYILAGPIRNDSITHL 69
>gnl|CDD|219361 pfam07277, SapC, SapC. This family contains a number of bacterial
SapC proteins approximately 250 residues long. In
Campylobacter fetus, SapC forms part of a
paracrystalline surface layer (S-layer) that confers
serum resistance.
Length = 220
Score = 27.2 bits (61), Expect = 6.3
Identities = 15/43 (34%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 161 TLDCAKYKVPDDLVVESGKLKKL-DEILPDLKKNGHRVLIFSQ 202
TLD K + ++ KL L DE L +L K+G+ LI++
Sbjct: 168 TLDGEKRNLNGFYTIDEEKLNALSDEALLELHKSGYLPLIYAH 210
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
0.319 0.136 0.395
Gapped
Lambda K H
0.267 0.0711 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,284,673
Number of extensions: 1192384
Number of successful extensions: 1214
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1208
Number of HSP's successfully gapped: 28
Length of query: 233
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 139
Effective length of database: 6,768,326
Effective search space: 940797314
Effective search space used: 940797314
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: 57 (25.8 bits)