May play a role at the plasma membrane in the maintenance of the structure of epithelial cells and in the transmission of extracellular signals to the membrane and cytoskeleton. Homo sapiens (taxid: 9606)
Close Homologs in the Non-Redundant Database Detected by BLAST
Score = 107 (42.7 bits), Expect = 0.00014, P = 0.00014
Identities = 32/91 (35%), Positives = 54/91 (59%)
Query: 2 ISVCCEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLC-DKLRKERDRAVSDLAEALR 60
IS E+SI + + R R+ A ERDK+ L++E +R L +K + +R+RA D EA +
Sbjct: 283 ISFGQEDSIASKQTAARYRNKAIKERDKL-LKQEEMRALAFEKAKLKRERA--DALEARK 339
Query: 61 DSDNIKKQKNETSKELKVLKEKMEAQVELER 91
K++K E K++ V +E+++ + E ER
Sbjct: 340 REKEDKEKKREELKKM-VEEERLKKKEEKER 369
Parameters:
V=100
filter=SEG
E=0.001
ctxfactor=1.00
Query ----- As Used ----- ----- Computed ----
Frame MatID Matrix name Lambda K H Lambda K H
+0 0 BLOSUM62 0.312 0.126 0.334 same same same
Q=9,R=2 0.244 0.0300 0.180 n/a n/a n/a
Query
Frame MatID Length Eff.Length E S W T X E2 S2
+0 0 93 93 0.00091 102 3 10 23 0.38 30
29 0.41 31
Statistics:
Database: /share/blast/go-seqdb.fasta
Title: go_20130330-seqdb.fasta
Posted: 5:47:42 AM PDT Apr 1, 2013
Created: 5:47:42 AM PDT Apr 1, 2013
Format: XDF-1
# of letters in database: 169,044,731
# of sequences in database: 368,745
# of database sequences satisfying E: 10
No. of states in DFA: 537 (57 KB)
Total size of DFA: 128 KB (2083 KB)
Time to generate neighborhood: 0.00u 0.00s 0.00t Elapsed: 00:00:00
No. of threads or processors used: 24
Search cpu time: 22.83u 0.10s 22.93t Elapsed: 00:00:02
Total cpu time: 22.83u 0.10s 22.93t Elapsed: 00:00:02
Start: Thu Aug 15 13:25:26 2013 End: Thu Aug 15 13:25:28 2013
>PF00038 Filament: Intermediate filament protein; InterPro: IPR016044 Intermediate filaments (IF) [, , ] are proteins which are primordial components of the cytoskeleton and the nuclear envelope
Probab=92.97 E-value=2.3 Score=31.75 Aligned_cols=83 Identities=18% Similarity=0.181 Sum_probs=68.6
Q ss_pred hhhHHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHhHHHHHHHHHHHHhHHHHHHHHHhhhhhHHHHhhhHHHHHHHHHHH
Q psy3837 2 ISVCCEESIQEAEVSKRRRDWAFSERDKIVLERESIRTLCDKLRKERDRAVSDLAEALRDSDNIKKQKNETSKELKVLKE 81 (93)
Q Consensus 2 ~~~el~ea~qeaevaKrrRDWAfsERdKIV~EReSirtLCd~LRkERD~AvS~la~AiRd~Ddi~kqk~ea~kel~~lKE 81 (93)
|..|+..+.+..+....-+.-...+++++-.+-+-++.=|+.....|..+-+++...-.+.|+....+.++..++..|++
T Consensus 52 ye~el~~lr~~id~~~~eka~l~~e~~~l~~e~~~~r~k~e~e~~~~~~le~el~~lrk~ld~~~~~r~~le~~i~~L~e 131 (312)
T PF00038_consen 52 YEEELRELRRQIDDLSKEKARLELEIDNLKEELEDLRRKYEEELAERKDLEEELESLRKDLDEETLARVDLENQIQSLKE 131 (312)
T ss_dssp HHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred hhhHHHHhHHhhhhHHHHhhHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhHhHHHHHHHHHHH
Confidence 66777777777777777777788888888888888888888888889998888888888888888888888888888888
Q ss_pred HHH
Q psy3837 82 KME 84 (93)
Q Consensus 82 k~e 84 (93)
.|.
T Consensus 132 El~ 134 (312)
T PF00038_consen 132 ELE 134 (312)
T ss_dssp HHH
T ss_pred HHH
Confidence 774
They generally form filamentous structures 8 to 14 nm wide. IF proteins are members of a very large multigene family of proteins which has been subdivided in five major subgroups: Type I: Acidic cytokeratins. Type II: Basic cytokeratins. Type III: Vimentin, desmin, glial fibrillary acidic protein (GFAP), peripherin, and plasticin. Type IV: Neurofilaments L, H and M, alpha-internexin and nestin. Type V: Nuclear lamins A, B1, B2 and C. All IF proteins are structurally similar in that they consist of: a central rod domain comprising some 300 to 350 residues which is arranged in coiled-coiled alpha-helices, with at least two short characteristic interruptions; a N-terminal non-helical domain (head) of variable length; and a C-terminal domain (tail) which is also non-helical, and which shows extreme length variation between different IF proteins. While IF proteins are evolutionary and structurally related, they have limited sequence homologies except in several regions of the rod domain. This entry represents the central rod domain found in IF proteins.; PDB: 3TNU_B 3KLT_D 1GK4_F 3TRT_A 3G1E_A 3UF1_C 1GK6_B 1GK7_A 3TYY_B 3V4W_A ....
>PF02520 DUF148: Domain of unknown function DUF148; InterPro: IPR003677 This entry represents the domain DUF148, which has no known function