RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8417
(326 letters)
>gnl|CDD|190856 pfam04078, Rcd1, Cell differentiation family, Rcd1-like. Two of
the members in this family have been characterized as
being involved in regulation of Ste11 regulated sex
genes. Mammalian Rcd1 is a novel transcriptional
cofactor that mediates retinoic acid-induced cell
differentiation.
Length = 262
Score = 492 bits (1269), Expect = e-178
Identities = 200/262 (76%), Positives = 225/262 (85%)
Query: 49 QWILELSIPETRENALLELSKKREVVPDLAPMLWHSFGTIAALLQEIINIYPTINPATLT 108
Q I +L+ PETRENALLELSKKRE PDLAP+LWHSFGTIAALLQEI++IYP ++P LT
Sbjct: 1 QLICDLTNPETRENALLELSKKRESFPDLAPLLWHSFGTIAALLQEIVSIYPLLSPPNLT 60
Query: 109 AHQSNRVCNALALLQCVASHQETRSLFLAAHIPLFLYPFLHTTSKTRPFEYLRLTSLGVI 168
A QSNRVCNALALLQCVASH ETR LFL AHIPL+LYPFL+TTSK+RPFEYLRLTSLGVI
Sbjct: 61 AQQSNRVCNALALLQCVASHPETRRLFLRAHIPLYLYPFLNTTSKSRPFEYLRLTSLGVI 120
Query: 169 GALVKTDEQEVITFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDSGLSYICQTY 228
GALVK+D+ EVI FLL+TEIIPLCLRIME GSELSKTVATFILQKILLDD GL+YICQT
Sbjct: 121 GALVKSDDPEVINFLLSTEIIPLCLRIMEFGSELSKTVATFILQKILLDDVGLNYICQTA 180
Query: 229 DRFSHVAMILGKMVISLEKDQSSRLLKHVVRCYLRLSDNARAREALRQCLPDQLRDSTFS 288
+RF VA +L KMV L + S RLLKHV+RCYLRLSDN RAREALR+CLP++LRD TFS
Sbjct: 181 ERFYAVATVLNKMVEQLTRQPSPRLLKHVIRCYLRLSDNPRAREALRKCLPEELRDGTFS 240
Query: 289 VCLNDDKSTKNWLAQLIKNLES 310
L +D +TK WL QL++NL
Sbjct: 241 QLLKEDPATKRWLLQLLQNLGD 262
>gnl|CDD|227534 COG5209, RCD1, Uncharacterized protein involved in cell
differentiation/sexual development [General function
prediction only].
Length = 315
Score = 348 bits (894), Expect = e-120
Identities = 164/271 (60%), Positives = 194/271 (71%)
Query: 43 EREKIYQWILELSIPETRENALLELSKKREVVPDLAPMLWHSFGTIAALLQEIINIYPTI 102
+ +Y WI +L + +E AL EL +KRE PDLA LW S G + LLQEII++YP +
Sbjct: 45 RQALVYSWICQLVVGNPKEQALDELFRKREQSPDLALELWRSDGVMTFLLQEIISVYPIL 104
Query: 103 NPATLTAHQSNRVCNALALLQCVASHQETRSLFLAAHIPLFLYPFLHTTSKTRPFEYLRL 162
+P+ L +SNRVCNAL LLQC+ASH ET+ +FL AHIPLFLYPFL+T+S FEYLRL
Sbjct: 105 SPSKLDERESNRVCNALNLLQCLASHPETKKVFLDAHIPLFLYPFLNTSSSNSKFEYLRL 164
Query: 163 TSLGVIGALVKTDEQEVITFLLTTEIIPLCLRIMESGSELSKTVATFILQKILLDDSGLS 222
TSLGVIGALVK D Q VI FLLTTEI+PLCLRIME GSELSKTVA FI QKIL DD GL
Sbjct: 165 TSLGVIGALVKNDSQYVIKFLLTTEIVPLCLRIMELGSELSKTVAIFIFQKILGDDVGLQ 224
Query: 223 YICQTYDRFSHVAMILGKMVISLEKDQSSRLLKHVVRCYLRLSDNARAREALRQCLPDQL 282
YICQT++RF V ++L MV L S+RLLKH +RCYLRLSD AR L LPD L
Sbjct: 225 YICQTFERFYAVNLVLNSMVSQLVSLGSTRLLKHAIRCYLRLSDKPHARALLSSKLPDGL 284
Query: 283 RDSTFSVCLNDDKSTKNWLAQLIKNLESVSA 313
RD TFS+ L DD +K LAQL+ L + +
Sbjct: 285 RDDTFSLVLADDGGSKECLAQLLTFLNLICS 315
>gnl|CDD|237841 PRK14867, PRK14867, DNA topoisomerase VI subunit B; Provisional.
Length = 659
Score = 31.3 bits (71), Expect = 0.81
Identities = 15/36 (41%), Positives = 19/36 (52%), Gaps = 1/36 (2%)
Query: 156 PFEYLRLTSLGVIGA-LVKTDEQEVITFLLTTEIIP 190
PFEYLR SL A + D +E + F T + IP
Sbjct: 189 PFEYLRRISLSTPHAKITLKDPEETVVFDRTVDEIP 224
>gnl|CDD|215742 pfam00136, DNA_pol_B, DNA polymerase family B. This region of DNA
polymerase B appears to consist of more than one
structural domain, possibly including elongation,
DNA-binding and dNTP binding activities.
Length = 458
Score = 29.6 bits (67), Expect = 2.8
Identities = 20/93 (21%), Positives = 30/93 (32%), Gaps = 19/93 (20%)
Query: 200 SELSKTVATFILQKILLDDS-----------GLSYICQTYDRFSHVAMILGKMVIS--LE 246
E K V +L +L D + + D+ + L +VI+ L
Sbjct: 292 CEFVKEVIRKVLDLLLKDKDVEDAAPSLKIVIIEILKSLTDKLVQNKVPLEDLVITKELS 351
Query: 247 KDQS---SRLLKHVVRCYLRLSDNARAREALRQ 276
K S + HV LRL R E +
Sbjct: 352 KPPSEYKKKNPPHVTV-ALRL--KKRGNEEAPE 381
>gnl|CDD|213346 cd12207, RasGAP_IQGAP3, Ras-GTPase Activating Domain of IQ motif
containing GTPase activating protein 3. This family
represents the IQ motif containing GTPase activating
protein 3 (IQGAP3), which associates with Ras
GTP-binding proteins. A primary function of IQGAP
proteins is to modulate cytoskeletal architecture. There
are three known IQGAP family members: IQGAP1, IQGAP2 and
IQGAP3. Human IQGAP1 and IQGAP2 share 62% identity.
IQGAPs are multi-domain molecules having a
calponin-homology (CH) domain which binds F-actin,
IQGAP-specific repeats, a single WW domain, four IQ
motifs that mediate interactions with calmodulin, and a
RasGAP related domain that binds active Rho family
GTPases. IQGAP is an essential regulator of cytoskeletal
function. IQGAP1 negatively regulates Ras family GTPases
by stimulating their intrinsic GTPase activity, the
protein actually lacks GAP activity. Both IQGAP1 and
IQGAP2 specifically bind to Cdc42 and Rac1, but not to
RhoA. Despite of their similarities to part of the
sequence of RasGAP, neither IQGAP1 nor IQGAP2 interacts
with Ras. IQGAP3, only present in mammals, regulates the
organization of the cytoskeleton under the regulation of
Rac1 and Cdc42 in neuronal cells. The depletion of
IQGAP3 is shown to impair neurite or axon outgrowth in
neuronal cells with disorganized cytoskeleton.
Length = 350
Score = 29.4 bits (66), Expect = 2.9
Identities = 15/51 (29%), Positives = 24/51 (47%), Gaps = 4/51 (7%)
Query: 257 VVRCYLRLSDNARAREALRQCL----PDQLRDSTFSVCLNDDKSTKNWLAQ 303
V+R + +AR + ALR L D L+D S+ + + K W+ Q
Sbjct: 49 VIRLLVSFYRSARGQNALRHILGPVVQDVLQDKGLSIRTDPVQIYKAWINQ 99
>gnl|CDD|239383 cd03109, DTBS, Dethiobiotin synthetase (DTBS) is the penultimate
enzyme in the biotin biosynthesis pathway in Escherichia
coli and other microorganisms. The enzyme catalyzes
formation of the ureido ring of dethiobiotin from
(7R,8S)-7,8-diaminononanoic acid (DAPA) and carbon
dioxide. The enzyme utilizes carbon dioxide instead of
hydrogen carbonate as substrate and is dependent on ATP
and divalent metal ions as cofactors.
Length = 134
Score = 27.4 bits (61), Expect = 6.8
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 6/66 (9%)
Query: 194 RIMESGSELSKTVATFILQKILLDDSGLSYIC----QTYDRFSHVAMILGKMVISLEKDQ 249
+G+++ KTVAT IL + L + G QTYD F V G V E
Sbjct: 2 MGFGTGTDIGKTVATAILARALK-EKGYRVAPLKPVQTYD-FVLVEGAGGLCVPLKEDFT 59
Query: 250 SSRLLK 255
++ + K
Sbjct: 60 NADVAK 65
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 0.135 0.386
Gapped
Lambda K H
0.267 0.0785 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 16,436,650
Number of extensions: 1578510
Number of successful extensions: 1420
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1419
Number of HSP's successfully gapped: 15
Length of query: 326
Length of database: 10,937,602
Length adjustment: 97
Effective length of query: 229
Effective length of database: 6,635,264
Effective search space: 1519475456
Effective search space used: 1519475456
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 (21.9 bits)
S2: 59 (26.4 bits)