RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy4087
(249 letters)
>gnl|CDD|227432 COG5101, CRM1, Importin beta-related nuclear transport receptor
[Nuclear structure / Intracellular trafficking and
secretion].
Length = 1053
Score = 319 bits (819), Expect = e-102
Identities = 142/250 (56%), Positives = 177/250 (70%), Gaps = 6/250 (2%)
Query: 1 MSALESDEWFTTALHYLVLISEVDEVEIFKICLEYWNALSSDLYRESPYMSSASGLPIMD 60
+ A E E A YL+ IS ++E EIFK LEYWN L +DLY E + + P++
Sbjct: 331 LEAREMAENLLNAHGYLIQISRINEREIFKTALEYWNKLVADLYSEFQRLPATEMSPLIQ 390
Query: 61 LPNNKS------HTMDEAVARRQFYAPVLTKIRYIMVSRMAKPEEVLVVENENGEVVREF 114
L + R+ Y +L+++R +++ M +PEEVL+VEN+ GE+VREF
Sbjct: 391 LSVGSQAISTNPNQDSTKPLRKHIYIGILSQLRLVLIENMVRPEEVLIVENDEGEIVREF 450
Query: 115 MKDTDSINLYKNMRETLVYLTHLNYTDTEQVMTQKLQQQVNGTEWSWKNLNTLCWAIGSI 174
+K+TD+I LYK+MRE LVYLTHL DTE+ M KL +Q++G EWSW NLNTLCWAIGSI
Sbjct: 451 VKETDTIELYKSMREVLVYLTHLIVDDTEKYMIGKLARQLDGKEWSWNNLNTLCWAIGSI 510
Query: 175 SGAMHEEDEKRFLVTVIKDLLGLCEQKKGKDNKAIIASNIMYVVGQYPRFLRAHWKFLKT 234
SGAM E +EKRF V VIKDLL LCE K+GKDNKA++ASNIMYVVGQYPRFL+AHW FLKT
Sbjct: 511 SGAMSEVNEKRFFVNVIKDLLALCEMKRGKDNKAVVASNIMYVVGQYPRFLKAHWSFLKT 570
Query: 235 VVNKLFEFMH 244
VV KLFEFMH
Sbjct: 571 VVKKLFEFMH 580
>gnl|CDD|216316 pfam01130, CD36, CD36 family. The CD36 family is thought to be a
novel class of scavenger receptors. There is also
evidence suggesting a possible role in signal
transduction. CD36 is involved in cell adhesion.
Length = 460
Score = 29.9 bits (68), Expect = 1.3
Identities = 8/66 (12%), Positives = 22/66 (33%), Gaps = 4/66 (6%)
Query: 114 FMKDTDSINLYKNMRETLVYLTHLNYTDTEQVMTQKLQQQVNGTEWSWKNLN-TLCWAIG 172
++ I++ KN ++ L V+ +L + + L W +
Sbjct: 388 LVEKVKGISILKNFPNVILPLFWFEEG---AVLDDELASLLKKQLVILPRIQSYLGWVLL 444
Query: 173 SISGAM 178
++ +
Sbjct: 445 ALGLIL 450
>gnl|CDD|222980 PHA03095, PHA03095, ankyrin-like protein; Provisional.
Length = 471
Score = 29.2 bits (66), Expect = 2.2
Identities = 13/60 (21%), Positives = 28/60 (46%), Gaps = 4/60 (6%)
Query: 6 SDEWFTTALHYLVLISEVDEVEIFKICLEYWNALSS-DLYRESP---YMSSASGLPIMDL 61
E+ T LH + S +I ++ LE +++ + +P Y+ +A+ L ++ L
Sbjct: 43 RGEYGKTPLHLYLHYSSEKVKDIVRLLLEAGADVNAPERCGFTPLHLYLYNATTLDVIKL 102
>gnl|CDD|233381 TIGR01371, met_syn_B12ind,
5-methyltetrahydropteroyltriglutamate--homocysteine
S-methyltransferase. This model describes the
cobalamin-independent methionine synthase. A family of
uncharacterized archaeal proteins is homologous to the
C-terminal region of this family. That family is
excluded from this model but, along with this family,
belongs to Pfam model pfam01717 [Amino acid
biosynthesis, Aspartate family].
Length = 750
Score = 29.2 bits (66), Expect = 2.3
Identities = 15/45 (33%), Positives = 20/45 (44%), Gaps = 6/45 (13%)
Query: 2 SALESDEWFTTALHYLVLISEVDEVEIFKICLEYWNALSSDLYRE 46
ALE +WF T HY+V E+ FK+ N + Y E
Sbjct: 100 PALEMTKWFNTNYHYIV--PELSPTTEFKL---TSNKPLEE-YLE 138
>gnl|CDD|232844 TIGR00143, hypF, [NiFe] hydrogenase maturation protein HypF. A
previously described regulatory effect of HypF
mutatation is attributable to loss of activity of a
regulatory hydrogenase. A zinc finger-like region
CXXCX(18)CXXCX(24)CXXCX(18)CXXC region further supported
the regulatory hypothesis. However, more recent work
(PUBMED:11375153) shows the direct effect is on the
activity of expressed hydrogenases with nickel/iron
centers, rather than on expression [Protein fate,
Protein modification and repair].
Length = 711
Score = 29.0 bits (65), Expect = 2.7
Identities = 14/58 (24%), Positives = 25/58 (43%), Gaps = 4/58 (6%)
Query: 110 VVREFMKDTDSINLYKNMRETLVYLTHLNYTDTE-QVMTQKLQQQVNGTEWSWKNLNT 166
+ + + D YK +E L + L D E Q + L Q N T+++ + L+
Sbjct: 384 YLSQHIGDLSVYETYKFFKEALNFF--LRIYDFEPQDIVCDLHPQYNTTQYA-EELSL 438
>gnl|CDD|233697 TIGR02040, PpsR-CrtJ, transcriptional regulator PpsR. This model
represents the transcriptional regulator PpsR which is
strictly associated with photosynthetic proteobacteria
and found in photosynthetic operons. PpsR has been
reported to be a repressor. These proteins contain a
Helix-Turn_Helix motif of the "fis" type (pfam02954)
[Energy metabolism, Photosynthesis].
Length = 442
Score = 28.2 bits (63), Expect = 5.0
Identities = 8/21 (38%), Positives = 14/21 (66%)
Query: 174 ISGAMHEEDEKRFLVTVIKDL 194
IS A ++ E+ +V VI+D+
Sbjct: 341 ISAAWVDQGERPLIVLVIRDI 361
>gnl|CDD|219939 pfam08619, Nha1_C, Alkali metal cation/H+ antiporter Nha1 C
terminus. The C terminus of the plasma membrane Nha1
antiporter plays an important role in the immediate cell
response to hypo-osmotic shock which prevents an
execessive loss of ions and water. This domain is found
with pfam00999.
Length = 430
Score = 28.2 bits (63), Expect = 5.0
Identities = 8/12 (66%), Positives = 12/12 (100%)
Query: 101 LVVENENGEVVR 112
++VENE+GEV+R
Sbjct: 255 IIVENEDGEVIR 266
>gnl|CDD|150555 pfam09895, DUF2122, RecB-family nuclease (DUF2122). This domain,
found in various hypothetical archaeal proteins, has no
known function.
Length = 105
Score = 26.5 bits (59), Expect = 6.0
Identities = 5/26 (19%), Positives = 12/26 (46%)
Query: 96 KPEEVLVVENENGEVVREFMKDTDSI 121
KP+ V ++ + +E +K +
Sbjct: 36 KPDVVYLLSRAAEGIKKEVLKVEGRV 61
>gnl|CDD|227544 COG5219, COG5219, Uncharacterized conserved protein, contains RING
Zn-finger [General function prediction only].
Length = 1525
Score = 27.7 bits (61), Expect = 6.6
Identities = 31/161 (19%), Positives = 59/161 (36%), Gaps = 17/161 (10%)
Query: 99 EVLVVENENGEVVREFMKDTDSINLYKNMRET-LVYLTHL--NYTDTEQVMTQKLQQQVN 155
+VL E + R +S LY + + + L L + D +K+++Q
Sbjct: 176 DVLYHELLSSVEDRRKFSKEESEWLYGRVENSEYLVLRKLFAEFVDIGLETDKKIEKQTL 235
Query: 156 GTEWSWKNLN---TLCWAIGSISGAMHEEDEKRFLVTVIKDLLGLCEQKKGKDNKAIIAS 212
+ + L+ + L+ ++K L L +K KD + +
Sbjct: 236 EDSF-VRMLDFKEDPVLGLVCSPQDGVTVSLSDLLLIILKYDLQLLVKKGRKDYSRMASE 294
Query: 213 NIMYV----------VGQYPRFLRAHWKFLKTVVNKLFEFM 243
+I Y+ + PR LR +K K ++KLF +
Sbjct: 295 SIEYLCPMLRLLSNMLSNSPRELREVYKLCKRPLSKLFSNL 335
>gnl|CDD|134004 PHA02248, PHA02248, hypothetical protein.
Length = 204
Score = 27.0 bits (59), Expect = 8.4
Identities = 9/32 (28%), Positives = 22/32 (68%)
Query: 105 NENGEVVREFMKDTDSINLYKNMRETLVYLTH 136
++NG+ + ++ KD +++ Y+ +T+ +LTH
Sbjct: 51 SDNGKFIAKYNKDMNAVGFYEESGDTVKHLTH 82
>gnl|CDD|226041 COG3510, CmcI, Cephalosporin hydroxylase [Defense mechanisms].
Length = 237
Score = 26.7 bits (59), Expect = 10.0
Identities = 11/56 (19%), Positives = 25/56 (44%), Gaps = 5/56 (8%)
Query: 67 HTMDEAVARRQFYAPVLTKIRYIMV-----SRMAKPEEVLVVENENGEVVREFMKD 117
H+M+ +A + AP+L+ Y++V + + P E V ++++
Sbjct: 154 HSMEHVLAELKLLAPLLSAGDYLVVEDSNVNDLPGPVLPWRFGGGPYEAVEAYLRE 209
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 0.133 0.395
Gapped
Lambda K H
0.267 0.0732 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 12,551,322
Number of extensions: 1156682
Number of successful extensions: 923
Number of sequences better than 10.0: 1
Number of HSP's gapped: 922
Number of HSP's successfully gapped: 21
Length of query: 249
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 155
Effective length of database: 6,768,326
Effective search space: 1049090530
Effective search space used: 1049090530
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: 58 (26.1 bits)