RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy1806
(244 letters)
>gnl|CDD|219608 pfam07855, DUF1649, Protein of unknown function (DUF1649). This
family is made up of sequences derived from hypothetical
eukaryotic proteins of unknown function.
Length = 156
Score = 160 bits (406), Expect = 7e-50
Identities = 65/177 (36%), Positives = 95/177 (53%), Gaps = 23/177 (12%)
Query: 8 FELTIEGHQIDEVVSSIFHTILFHRSYGKFDYKQNEENKYSVGTLGYNDVDCNFIDFTYV 67
EL E Q+ +VV I HTILFHRS+G T+G DVDC+FIDFTYV
Sbjct: 1 LELFAEPRQVKDVVRCILHTILFHRSFG---------------TVGPKDVDCDFIDFTYV 45
Query: 68 CCSSADLNQTVRKHVNQFSNILRNTQDSNVSPNPTSGQISLEFFKKNKKHWPF--NEICI 125
+L + + +NQF L + SGQISL+F++K KK F + +
Sbjct: 46 RIDDPELETLIDQRINQFVRALESN------KAQGSGQISLQFYEKKKKRTWFGRGDEEV 99
Query: 126 PWELWNVRLELIKLNNEQERRLSCEKIVNVLTQQVIYICDVMNRNDYVPNIPIKSEL 182
WE+W V++ + E ER+ E + + LT++V+ I +V+NR+D++P IP E
Sbjct: 100 CWEVWTVKVTVATPRTEDERQKVREAVESSLTEKVLKIIEVVNRHDHIPPIPTSDEN 156
>gnl|CDD|147218 pfam04938, SIP1, Survival motor neuron (SMN) interacting protein 1
(SIP1). Survival motor neuron (SMN) interacting protein
1 (SIP1) interacts with SMN protein and plays a crucial
role in the biogenesis of spliceosomes. There is
evidence that the protein is linked to spinal muscular
atrophy (SMA) and amyotrophic lateral sclerosis(ALS) in
humans.
Length = 233
Score = 28.6 bits (64), Expect = 2.4
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 3/59 (5%)
Query: 68 CCSSADLNQTVRKHVNQFSNILRNTQDSNVSPNPTSGQISLEFFKKNKKHWPFNEICIP 126
+++ Q+V KH ++N DSNVSP T + + F ++ FN+ P
Sbjct: 81 VADFSEVRQSVAKHREHWAN---QNLDSNVSPPLTEDEEGWKKFCLGEELCSFNKTGFP 136
>gnl|CDD|227109 COG4768, COG4768, Uncharacterized protein containing a divergent
version of the methyl-accepting chemotaxis-like domain
[General function prediction only].
Length = 139
Score = 28.2 bits (63), Expect = 2.6
Identities = 14/47 (29%), Positives = 23/47 (48%), Gaps = 2/47 (4%)
Query: 70 SSADLNQTVRKHVNQFSNILRNTQDSNVSPNPTSGQISLEFFKKNKK 116
S +DLNQ+VR + +N + + ++ +FFKK KK
Sbjct: 88 SVSDLNQSVRHLATRATNAVEKNEKKIAQ--AVVSNVASKFFKKKKK 132
>gnl|CDD|227570 COG5245, DYN1, Dynein, heavy chain [Cytoskeleton].
Length = 3164
Score = 28.8 bits (64), Expect = 3.4
Identities = 18/94 (19%), Positives = 28/94 (29%), Gaps = 2/94 (2%)
Query: 64 FTYVCCSSADLNQTVRKHVNQFSNILRNTQDSNVSPNPTSGQISLEFFKKNKKHWPFNEI 123
F S D+ K + Q + + P+ +S F K
Sbjct: 2574 FWLSEGRSGDMGSIEWKQLIQVMFVSKVLGCETEIPDALEKLVSGPLFVHEKALNALK-A 2632
Query: 124 CIPWELWNV-RLELIKLNNEQERRLSCEKIVNVL 156
C LW + R L KL ++I +L
Sbjct: 2633 CGSLFLWVLARYLLAKLMLSISNMEQTDEIAVLL 2666
>gnl|CDD|235652 PRK05950, sdhB, succinate dehydrogenase iron-sulfur subunit;
Reviewed.
Length = 232
Score = 28.2 bits (64), Expect = 3.8
Identities = 18/58 (31%), Positives = 27/58 (46%), Gaps = 16/58 (27%)
Query: 146 RLSCEKIVNVLTQQVIYICDVMNRNDYVPNIP-IKSELDLIFDTS-----YRDIQPYL 197
L+C ++ L + I I +P +P IK DL+ D + YR I+PYL
Sbjct: 69 GLACITPISDLKKGKIVI-------RPLPGLPVIK---DLVVDMTQFYAQYRSIKPYL 116
>gnl|CDD|236265 PRK08439, PRK08439, 3-oxoacyl-(acyl carrier protein) synthase II;
Reviewed.
Length = 406
Score = 28.2 bits (63), Expect = 5.0
Identities = 10/27 (37%), Positives = 18/27 (66%), Gaps = 4/27 (14%)
Query: 164 CDVMNRNDYVPNIPIKSELDLIFDTSY 190
CD+ DY+PN+ K+EL+++ S+
Sbjct: 370 CDL----DYIPNVARKAELNVVMSNSF 392
>gnl|CDD|219397 pfam07393, Sec10, Exocyst complex component Sec10. This family
contains the Sec10 component (approximately 650 residues
long) of the eukaryotic exocyst complex, which
specifically affects the synthesis and delivery of
secretory and basolateral plasma membrane proteins.
Length = 685
Score = 28.1 bits (63), Expect = 5.2
Identities = 14/49 (28%), Positives = 22/49 (44%), Gaps = 6/49 (12%)
Query: 132 VRLELIKLNNEQERRLSC------EKIVNVLTQQVIYICDVMNRNDYVP 174
+R E++K N RL +K ++VL V YI + D+ P
Sbjct: 492 IRREMVKKKNSFISRLEEKVNAGLQKTIDVLMGWVKYILSKQKKTDFRP 540
>gnl|CDD|220978 pfam11099, M11L, Apoptosis regulator M11L like. Apoptosis
regulators function to modulate the apoptotic cascades
and thereby favour productive viral replication. M11L
inhibits mitochondrial-dependant apoptosis by mimicking
and competing with host proteins for the binding and
blocking of Bak and Bax, two executioner proteins.
Length = 167
Score = 27.0 bits (60), Expect = 6.5
Identities = 18/55 (32%), Positives = 26/55 (47%), Gaps = 7/55 (12%)
Query: 135 ELIKLNNEQERRL------SCEKIVNVLTQQVIYICDVMNRNDYVPNIP-IKSEL 182
E + + ER L CEKI N + ICD++ +D NI IK+E+
Sbjct: 15 EEKRQLSNYERSLLDLIKNCCEKINNDYKRDFNSICDILEVDDKSYNIYDIKNEI 69
>gnl|CDD|213253 cd03286, ABC_MSH6_euk, ATP-binding cassette domain of eukaryotic
MutS6 homolog. The MutS protein initiates DNA mismatch
repair by recognizing mispaired and unpaired bases
embedded in duplex DNA and activating endo- and
exonucleases to remove the mismatch. Members of the MutS
family possess C-terminal domain with a conserved ATPase
activity that belongs to the ATP binding cassette (ABC)
superfamily. MutS homologs (MSH) have been identified in
most prokaryotic and all eukaryotic organisms examined.
Prokaryotes have two homologs (MutS1 and MutS2), whereas
seven MSH proteins (MSH1 to MSH7) have been identified
in eukaryotes. The homodimer MutS1 and heterodimers
MSH2-MSH3 and MSH2-MSH6 are primarily involved in
mitotic mismatch repair, whereas MSH4-MSH5 is involved
in resolution of Holliday junctions during meiosis. All
members of the MutS family contain the highly conserved
Walker A/B ATPase domain, and many share a common
mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and
MSH4-MSH5 dimerize to form sliding clamps, and
recognition of specific DNA structures or lesions
results in ADP/ATP exchange.
Length = 218
Score = 27.0 bits (60), Expect = 7.6
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 204 NSSQYNLV--DEACPGVSNPAGHTASSSVAHFVKKTIKDTLLF 244
+++ +LV DE G S G+ + +V ++ K +K LF
Sbjct: 106 HATPDSLVILDELGRGTSTHDGYAIAHAVLEYLVKKVKCLTLF 148
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
0.320 0.135 0.411
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 11,870,994
Number of extensions: 1073067
Number of successful extensions: 833
Number of sequences better than 10.0: 1
Number of HSP's gapped: 829
Number of HSP's successfully gapped: 19
Length of query: 244
Length of database: 10,937,602
Length adjustment: 94
Effective length of query: 150
Effective length of database: 6,768,326
Effective search space: 1015248900
Effective search space used: 1015248900
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 (26.3 bits)