RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy14705
(329 letters)
>gnl|CDD|215740 pfam00134, Cyclin_N, Cyclin, N-terminal domain. Cyclins regulate
cyclin dependent kinases (CDKs). Human cyclin-O is a
Uracil-DNA glycosylase that is related to other cyclins.
Cyclins contain two domains of similar all-alpha fold,
of which this family corresponds with the N-terminal
domain.
Length = 127
Score = 40.2 bits (95), Expect = 2e-04
Identities = 21/127 (16%), Positives = 52/127 (40%), Gaps = 16/127 (12%)
Query: 139 LKKELNDKFKEKFPHIKLTLSKLRSLKREMRKIAKVD-------NSNLELLTVAQAYVYF 191
+ E D+ + + ++ +MR I +D L T+ A Y
Sbjct: 7 RELEEEDRPPPDYLDQQPDINP------KMRAIL-IDWLVEVHEEFKLLPETLYLAVNYL 59
Query: 192 EKLILLALINKENRKLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFA 251
++ + + + +L CLL++AK ++ +++ + T+N + ++++ E
Sbjct: 60 DRFLSKQPVPRTKLQLVGVTCLLIAAKYEEIYPPSVEDFVYITDNAY--TKEEILRMELL 117
Query: 252 VLVALEF 258
+L L +
Sbjct: 118 ILSTLNW 124
>gnl|CDD|238003 cd00043, CYCLIN, Cyclin box fold. Protein binding domain
functioning in cell-cycle and transcription control.
Present in cyclins, TFIIB and Retinoblastoma (RB).The
cyclins consist of 8 classes of cell cycle regulators
that regulate cyclin dependent kinases (CDKs). TFIIB is
a transcription factor that binds the TATA box. Cyclins,
TFIIB and RB contain 2 copies of the domain.
Length = 88
Score = 35.3 bits (82), Expect = 0.005
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 6/93 (6%)
Query: 161 LRSLKREMRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLN 220
+ +R++AK + E LT+A ++ +L + + L A A L L+AK+
Sbjct: 2 RPTPLDFLRRVAKALGLSPETLTLAV--NLLDRFLLDYSVLGRSPSLVAAAALYLAAKVE 59
Query: 221 DVKGDALKTLIEKTENIFRLNRKDLFAAEFAVL 253
++ LK L+ T +++ E +L
Sbjct: 60 EIP-PWLKDLVHVTGYA---TEEEILRMEKLLL 88
>gnl|CDD|227357 COG5024, COG5024, Cyclin [Cell division and chromosome
partitioning].
Length = 440
Score = 34.8 bits (80), Expect = 0.065
Identities = 16/59 (27%), Positives = 31/59 (52%), Gaps = 2/59 (3%)
Query: 206 KLCAGACLLLSAKLNDVKGDALKTLIEKTENIFRLNRKDLFAAEFAVLVALEFGLHLPT 264
+L + L +++K +V ++K L+ T+ F R D+ AE +L L+F + P+
Sbjct: 256 QLVGISALFIASKYEEVNCPSIKDLVYATDGAF--TRDDIIRAERYMLEVLDFNISWPS 312
>gnl|CDD|214641 smart00385, CYCLIN, domain present in cyclins, TFIIB and
Retinoblastoma. A helical domain present in cyclins and
TFIIB (twice) and Retinoblastoma (once). A protein
recognition domain functioning in cell-cycle and
transcription control.
Length = 83
Score = 31.0 bits (71), Expect = 0.13
Identities = 16/86 (18%), Positives = 32/86 (37%), Gaps = 6/86 (6%)
Query: 168 MRKIAKVDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDAL 227
+R++ K N + E L +A ++ + K + L A A L L++K +
Sbjct: 3 LRRVCKALNLDPETLNLA--VNLLDRFLSDYKFLKYSPSLIAAAALYLASKTEETP---- 56
Query: 228 KTLIEKTENIFRLNRKDLFAAEFAVL 253
E +++ E +L
Sbjct: 57 PWTKELVHYTGYFTEEEILRMERLLL 82
>gnl|CDD|227640 COG5333, CCL1, Cdk activating kinase (CAK)/RNA polymerase II
transcription initiation/nucleotide excision repair
factor TFIIH/TFIIK, cyclin H subunit [Cell division and
chromosome partitioning / Transcription / DNA
replication, recombination, and repair].
Length = 297
Score = 30.5 bits (69), Expect = 1.1
Identities = 20/89 (22%), Positives = 42/89 (47%), Gaps = 3/89 (3%)
Query: 178 NLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGD-ALKTLIEKTEN 236
NL +A A ++F + L + + + C+ L+ K+ D D ++++ +
Sbjct: 60 NLPQTVLATAILFFSRFYLKNSVEEISLYSVVTTCVYLACKVEDTPRDISIESFEARDLW 119
Query: 237 --IFRLNRKDLFAAEFAVLVALEFGLHLP 263
+ +R+ + EF +L AL+F LH+
Sbjct: 120 SEEPKSSRERILEYEFELLEALDFDLHVH 148
>gnl|CDD|163480 TIGR03768, RPA4764, metallophosphoesterase, RPA4764 family. This
model describes a small collection of probable
metallophosphoresterases, related to pfam00149. Members
of this protein family usually have a Sec-independent
TAT (twin-arginine translocation) signal sequence,
N-terminal to the region modeled by This model. This
model and TIGR03767 divide a narrow clade of
pfam00149-related enzymes.
Length = 492
Score = 30.6 bits (69), Expect = 1.2
Identities = 12/46 (26%), Positives = 20/46 (43%)
Query: 74 LIPASPPIAVLDNKAGVDWELGDPYSGPYSPNLLDDPELIAGKHRT 119
+I A PIAV + ++W LG + P N + L+ +
Sbjct: 352 IIAAHIPIAVSPIGSEMEWWLGAADANPDLQNAVSLTGLVTTLQKY 397
>gnl|CDD|132809 cd07276, PX_SNX16, The phosphoinositide binding Phox Homology
domain of Sorting Nexin 16. The PX domain is a
phosphoinositide (PI) binding module present in many
proteins with diverse functions. Sorting nexins (SNXs)
make up the largest group among PX domain containing
proteins. They are involved in regulating membrane
traffic and protein sorting in the endosomal system. The
PX domain of SNXs binds PIs and targets the protein to
PI-enriched membranes. SNXs differ from each other in
PI-binding specificity and affinity, and the presence of
other protein-protein interaction domains, which help
determine subcellular localization and specific function
in the endocytic pathway. SNX16 contains a central PX
domain followed by a coiled-coil region. SNX16 is
localized in early and recycling endosomes through the
binding of its PX domain to
phosphatidylinositol-3-phosphate (PI3P). It plays a role
in epidermal growth factor (EGF) signaling by regulating
EGF receptor membrane trafficking.
Length = 110
Score = 27.4 bits (61), Expect = 4.9
Identities = 14/34 (41%), Positives = 18/34 (52%), Gaps = 7/34 (20%)
Query: 132 DYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLK 165
D+VR LNDK K+ FP +L+L R K
Sbjct: 43 DFVR-------LNDKLKQMFPGFRLSLPPKRWFK 69
>gnl|CDD|226834 COG4399, COG4399, Uncharacterized protein conserved in bacteria
[Function unknown].
Length = 376
Score = 28.5 bits (64), Expect = 5.5
Identities = 33/123 (26%), Positives = 45/123 (36%), Gaps = 9/123 (7%)
Query: 110 PELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREMR 169
PE I K R L F +T ID + LK E+ DK K +
Sbjct: 72 PEGIQKKLRREL-FQERVTEAIDQLLQKLLKSEVTDKE------QLHQQIFADIEKDLIG 124
Query: 170 KIAK-VDNSNLELLTVAQAYVYFEKLILLALINKENRKLCAGACLLLSAKLNDVKGDALK 228
+ ++ E T AQ+ FE LI L L+ + L + LL S V A K
Sbjct: 125 NSERWLEKELAEKFTEAQSNTIFE-LIPLELVESLEQSLPSADWLLESRARPYVASLAGK 183
Query: 229 TLI 231
+
Sbjct: 184 IQL 186
>gnl|CDD|185472 PTZ00138, PTZ00138, small nuclear ribonucleoprotein; Provisional.
Length = 89
Score = 26.2 bits (58), Expect = 8.0
Identities = 15/38 (39%), Positives = 18/38 (47%), Gaps = 4/38 (10%)
Query: 106 LLDDPEL-IAGKHRTLLTFTSYMTSVIDYVRPLDLKKE 142
L D P L I GK +L F YM V+D + KK
Sbjct: 33 LYDHPNLRIEGK---ILGFDEYMNMVLDDAEEVYTKKN 67
>gnl|CDD|218324 pfam04912, Dynamitin, Dynamitin. Dynamitin is a subunit of the
microtubule-dependent motor complex and in implicated in
cell adhesion by binding to macrophage-enriched
myristoylated alanine-rice C kinase substrate
(MacMARCKS).
Length = 376
Score = 27.8 bits (62), Expect = 8.8
Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 10/75 (13%)
Query: 109 DPELIAGKHRTLLTFTSYMTSVIDYVRPLDLKKELNDKFKEKFPHIKLTLSKLRSLKREM 168
DP+ + + LT + +++ V + K L D H+ +L+S+ +M
Sbjct: 216 DPDKL-----SRLTADTESLPLLEAVSRISAKAALLDP-----DHLDHIEQRLQSVLGKM 265
Query: 169 RKIAKVDNSNLELLT 183
I + ++L
Sbjct: 266 ESIDEKKAASLADAN 280
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
0.321 0.137 0.405
Gapped
Lambda K H
0.267 0.0735 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,985,787
Number of extensions: 1670367
Number of successful extensions: 1428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1424
Number of HSP's successfully gapped: 24
Length of query: 329
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 232
Effective length of database: 6,635,264
Effective search space: 1539381248
Effective search space used: 1539381248
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: 59 (26.5 bits)