RPS-BLAST 2.2.26 [Sep-21-2011]
Database: CDD.v3.10
44,354 sequences; 10,937,602 total letters
Searching..................................................done
Query= psy8922
(483 letters)
>gnl|CDD|216628 pfam01652, IF4E, Eukaryotic initiation factor 4E.
Length = 162
Score = 233 bits (596), Expect = 3e-75
Identities = 85/168 (50%), Positives = 113/168 (67%), Gaps = 9/168 (5%)
Query: 302 PLHNKWTLWYF---ENDKNKGWEENQREITSFSTVEDFWCVFNHIKQASDLRVGCDYSLF 358
PL NKWTLWY DK+K +E+N + I +F TVEDFW ++N+I + S L +G DY LF
Sbjct: 1 PLQNKWTLWYDRRPPGDKSKDYEDNLKPIGTFDTVEDFWRLYNNIPRPSKLPLGSDYHLF 60
Query: 359 KSGIRPMWEDETNKNGGRWLISLDRKQRSSELNAFWLEILLCLIGEAFDDYSEDICGAVV 418
K GI+PMWED NKNGG+W I L + Q FW E+LL LIGE FD+ S++ICG V+
Sbjct: 61 KKGIKPMWEDPANKNGGKWTIRLPKSQNLDR---FWEELLLALIGEQFDE-SDEICGVVL 116
Query: 419 NVRAKGDKIGIWTVDASRSKSDGILSIGRKIKERLGIGAEYQIVYQSH 466
+VR K DKI +WT +A S + +L IG+K+KE LG+ +I Y+ H
Sbjct: 117 SVRKKEDKISVWTKNA--SNEEALLRIGKKLKEVLGLPPNDKIEYKPH 162
Score = 69.5 bits (171), Expect = 5e-14
Identities = 25/61 (40%), Positives = 35/61 (57%), Gaps = 6/61 (9%)
Query: 5 PLHNKWTLWYF---ENDKNKGWEENQREITSFSTVEDFWWYFRSIDNEKELSQMSSDQSY 61
PL NKWTLWY DK+K +E+N + I +F TVEDFW + +I S++ Y
Sbjct: 1 PLQNKWTLWYDRRPPGDKSKDYEDNLKPIGTFDTVEDFWRLYNNI---PRPSKLPLGSDY 57
Query: 62 Y 62
+
Sbjct: 58 H 58
Score = 47.6 bits (114), Expect = 1e-06
Identities = 17/34 (50%), Positives = 22/34 (64%), Gaps = 3/34 (8%)
Query: 243 PLHNKWTLWYF---ENDKNKGWEENQREITSFST 273
PL NKWTLWY DK+K +E+N + I +F T
Sbjct: 1 PLQNKWTLWYDRRPPGDKSKDYEDNLKPIGTFDT 34
>gnl|CDD|227386 COG5053, CDC33, Translation initiation factor 4E (eIF-4E)
[Translation, ribosomal structure and biogenesis].
Length = 217
Score = 147 bits (373), Expect = 1e-41
Identities = 67/196 (34%), Positives = 101/196 (51%), Gaps = 8/196 (4%)
Query: 278 QPQENTTTTAVTTPEVESELMIKHPLHNKWTLWYFEN--DKNKGWEENQREITSFSTVED 335
P T T ++ + M KHPL WTLW+ + D + W + + I +F TVE+
Sbjct: 17 DPTTKTPRTVLSD---SAHFMNKHPLAFHWTLWFLKPPEDGLESWSDLLKSIITFETVEE 73
Query: 336 FWCVFNHIKQASDLRVGCDYSLFKSGIRPMWEDETNKNGGRWLISLDRKQRSSELNAFWL 395
FW + ++I AS L DY++F+ GIRP WEDE N NGG+W L + + L+ WL
Sbjct: 74 FWYILHNISDASRLPRKSDYNVFREGIRPEWEDEANMNGGKWSFQL-KGKGCDRLDELWL 132
Query: 396 EILLCLIGEAFDDYSEDICGAVVNVRAKGDKIGIWTVDASRSKSDGILSIGRKIKERLGI 455
LL IGE D +I G V N+R K+ IWT + + D + +IG + K+ L +
Sbjct: 133 RTLLAAIGETLDPTGSEIGGVVGNMRKGFYKLAIWT--RNCNNKDVLGAIGNEFKQVLEL 190
Query: 456 GAEYQIVYQSHRDTAS 471
+ Y++H +
Sbjct: 191 SDVETLEYKAHESSKL 206
Score = 58.0 bits (140), Expect = 1e-09
Identities = 23/65 (35%), Positives = 36/65 (55%), Gaps = 3/65 (4%)
Query: 1 MIKHPLHNKWTLWYFEN--DKNKGWEENQREITSFSTVEDFWWYFRSIDNEKELSQMSSD 58
M KHPL WTLW+ + D + W + + I +F TVE+FW+ +I + L + SD
Sbjct: 34 MNKHPLAFHWTLWFLKPPEDGLESWSDLLKSIITFETVEEFWYILHNISDASRLPRK-SD 92
Query: 59 QSYYR 63
+ +R
Sbjct: 93 YNVFR 97
>gnl|CDD|240238 PTZ00040, PTZ00040, translation initiation factor E4; Provisional.
Length = 233
Score = 69.5 bits (170), Expect = 2e-13
Identities = 36/122 (29%), Positives = 58/122 (47%), Gaps = 20/122 (16%)
Query: 302 PLHNKWTLWYFEND----KNKGWEENQREITSFSTVEDFWCVFNHIKQASDL-------R 350
PL KW +W K+ +++ + + SF +V+ FW ++ +I Q S+L R
Sbjct: 39 PLSYKWVIWEQVVKETIRKSNDYKDYTKPLASFDSVQKFWQLWFNIPQPSELLTGKRMIR 98
Query: 351 VGCDYS--------LFKSGIRPMWEDETNKNGGRWLISLDRKQRS-SELNAFWLEILLCL 401
D S +FK GI+PMWED N GG + S +++ +W ++L L
Sbjct: 99 ESSDGSEHVVDAVMIFKDGIQPMWEDPMNATGGHFEYRFWPTDVSPGQIDEYWNNLVLAL 158
Query: 402 IG 403
IG
Sbjct: 159 IG 160
Score = 36.3 bits (84), Expect = 0.022
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 4/53 (7%)
Query: 5 PLHNKWTLWYFEND----KNKGWEENQREITSFSTVEDFWWYFRSIDNEKELS 53
PL KW +W K+ +++ + + SF +V+ FW + +I EL
Sbjct: 39 PLSYKWVIWEQVVKETIRKSNDYKDYTKPLASFDSVQKFWQLWFNIPQPSELL 91
>gnl|CDD|234232 TIGR03499, FlhF, flagellar biosynthetic protein FlhF. [Cellular
processes, Chemotaxis and motility].
Length = 283
Score = 31.5 bits (72), Expect = 0.93
Identities = 25/82 (30%), Positives = 29/82 (35%), Gaps = 6/82 (7%)
Query: 129 LALSRELEPLLVPLALSRELEPLLVPLALSRELEPLLVPLALRRELELLLVVLELSRELE 188
L ++ EPLL L +EL ALR LE LL L L R
Sbjct: 82 EPLELPAPLEEPAAPAAQAAEPLLPEAELRKELS------ALRELLERLLAGLALQRRDP 135
Query: 189 PSLALSRELEPLLVPPTLSREL 210
L L V L+REL
Sbjct: 136 EGAKLLERLLEAGVSEELAREL 157
>gnl|CDD|226406 COG3889, COG3889, Predicted solute binding protein [General
function prediction only].
Length = 872
Score = 31.0 bits (70), Expect = 1.7
Identities = 16/61 (26%), Positives = 21/61 (34%)
Query: 41 WYFRSIDNEKELSQMSSDQSYYRPRTRAITSSTRTEPGIRTTTRPTCTKPGIRTITSTAC 100
S S + S +T T +T + P TT PT T T TS +
Sbjct: 784 ETTLSYSAYSNTSILIETTSVVITKTVTQTQTTTSSPSPTQTTSPTQTSTSTTTTTSPSQ 843
Query: 101 T 101
T
Sbjct: 844 T 844
>gnl|CDD|188962 cd09563, SAM_liprin-beta1,2_repeat1, SAM domain of liprin-beta1,2
proteins repeat 1. SAM (sterile alpha motif) domain
repeat 1 of liprin-beta1,2 proteins is a protein-protein
interaction domain. Liprin-beta protein contain three
copies (repeats) of SAM domain. They may form
heterodimers with liprins-alpha through their SAM
domains. It was suggested based on bioinformatic
approaches that the second SAM domain of liprin-beta is
potentially able to form polymers. Liprins were
originally identified as LAR (leukocyte common
antigen-related) transmembrane protein-tyrosine
phosphatase-interacting proteins. They participate in
mammary gland development, in axon guidance, and in the
maintenance of lymphatic vessel integrity.
Length = 64
Score = 28.0 bits (63), Expect = 1.8
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 233 EVESELMIKHPLHNK 247
E+E EL IKHPLH K
Sbjct: 42 ELEKELGIKHPLHRK 56
Score = 28.0 bits (63), Expect = 1.8
Identities = 11/15 (73%), Positives = 12/15 (80%)
Query: 292 EVESELMIKHPLHNK 306
E+E EL IKHPLH K
Sbjct: 42 ELEKELGIKHPLHRK 56
>gnl|CDD|183251 PRK11639, PRK11639, zinc uptake transcriptional repressor;
Provisional.
Length = 169
Score = 29.7 bits (67), Expect = 1.9
Identities = 14/26 (53%), Positives = 17/26 (65%)
Query: 191 LALSRELEPLLVPPTLSRELEPLLEK 216
L L RE EP PPT+ R L+ LLE+
Sbjct: 48 LDLLREAEPQAKPPTVYRALDFLLEQ 73
>gnl|CDD|236916 PRK11492, hyfE, hydrogenase 4 membrane subunit; Provisional.
Length = 216
Score = 29.9 bits (68), Expect = 2.2
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 16/78 (20%)
Query: 121 ITKPLLVPLALSRELEPLLVPLALSRELEPLLVPLALSRELEPLLVPLALRRELELLLVV 180
ITK LLVPL ++ L E EP+ P + + LA L VV
Sbjct: 66 ITKVLLVPLIMTYAARKLGDN----IEEEPVFGP--------AMSILLAALIVLLCAFVV 113
Query: 181 ----LELSRELEPSLALS 194
L ++ L+P+LA+S
Sbjct: 114 QPVKLPMALGLKPALAVS 131
>gnl|CDD|221918 pfam13093, FTA4, Kinetochore complex Fta4 of Sim4 subunit, or
CENP-50. Fission yeast has three kinetochore protein
complexes. Two complexes, Sim4 and Ndc80-MIND-Spc7
(NMS), are constitutive components, whereas the third
complex, DASH, is transiently associated with
kinetochores only in mitosis and is required for precise
chromosome segregation. The Sim4 complex functions as a
loading dock for the DASH complex. Sim4 consists of a
number of different proteins including Ftas 1-7 and
Dad1.
Length = 211
Score = 29.6 bits (67), Expect = 2.6
Identities = 33/114 (28%), Positives = 46/114 (40%), Gaps = 16/114 (14%)
Query: 129 LALSRELEPLL---VPLALSRELEPLLVPLALSRELEPLLVPLALRRELELLLVVLELSR 185
L L +EP+L L+ + L P E + P R EL ++EL
Sbjct: 97 LKLEEGIEPILPDGEDLSNHELIAKL--PEEWPDESDADASPEEAERYDELRERLIELDA 154
Query: 186 ELEPSLALSRELEPLLVPPTLSRELEPLLEKEQQPQENTTTTAVTT-PEVESEL 238
+ L L+ L R+L+ LLE PQEN VT E+E+EL
Sbjct: 155 RRQ---QLQERLDQL-------RQLKKLLEPFDSPQENIQPNLVTKDGELEAEL 198
>gnl|CDD|183126 PRK11414, PRK11414, colanic acid/biofilm transcriptional regulator;
Provisional.
Length = 221
Score = 29.5 bits (66), Expect = 3.3
Identities = 39/115 (33%), Positives = 50/115 (43%), Gaps = 25/115 (21%)
Query: 115 KPGIRTITKPLLVPLALS----RE-LEPLLVPLALS-RELEPLLVPLALSRELEPLLVPL 168
KPG R ITK L L +S RE L L+ ALS + VP R+L+ +
Sbjct: 30 KPGARLITKNLAEQLGMSITPVREALLRLVSVNALSVAPAQAFTVPEVSKRQLDEIN--- 86
Query: 169 ALRRELELLLVVLELSRELEPSLALSRELEPLLVPPTLSRELEPLLEKEQQPQEN 223
+R ELEL+ V L + + P EL+ LLEK QQ QE
Sbjct: 87 RIRYELELMAVALAVEN----------------LTPQDLAELQELLEKLQQAQEK 125
>gnl|CDD|188893 cd09494, SAM_liprin-kazrin_repeat1, SAM domain of liprin/kazrin
proteins repeat 1. SAM (sterile alpha motif) domain
repeat 1 of liprin/kazrin proteins is a protein-protein
interaction domain. The long form of liprin/kazrin
proteins contains three copies (repeats) of the SAM
domain. Liprin-alpha may form heterodimers with
liprin-beta through their SAM domains. Liprins were
originally identified as LAR (leukocyte common
antigen-related) transmembrane protein-tyrosine
phosphatase-interacting proteins. They participate in
mammary gland development and in axon guidance. In
particular, liprin-alpha is involved in formation of the
presynaptic active zone; liprin-beta is involved in the
maintenance of lymphatic vessel integrity. Kazrins are
involved in interplay between desmosomes and adherens
junctions; additionally they play a role in regulation
of intercellular differentiation, junction assembly, and
cytoskeletal organization.
Length = 58
Score = 26.8 bits (59), Expect = 4.4
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 225 TTTAVTTPEVESELMIKHPLHNK 247
T ++ E+E EL IK+PLH K
Sbjct: 28 TLLTLSDQEMEKELGIKNPLHRK 50
Score = 26.8 bits (59), Expect = 4.4
Identities = 11/23 (47%), Positives = 15/23 (65%)
Query: 284 TTTAVTTPEVESELMIKHPLHNK 306
T ++ E+E EL IK+PLH K
Sbjct: 28 TLLTLSDQEMEKELGIKNPLHRK 50
>gnl|CDD|216421 pfam01299, Lamp, Lysosome-associated membrane glycoprotein (Lamp).
Length = 305
Score = 28.9 bits (65), Expect = 6.4
Identities = 17/62 (27%), Positives = 24/62 (38%), Gaps = 6/62 (9%)
Query: 64 PRTRAITSSTRTEPGIRTTTRPTCTKPGIRTITSTACTEPGIRTITR---STCTKPGIRT 120
+T S TT P T G++T+TS+ T+ T R ST T
Sbjct: 1 YSVTELTFSYNLSD---TTLFPNATSKGVKTVTSSTDTKAPTNTTYRCVSSTTVPMTNVT 57
Query: 121 IT 122
+T
Sbjct: 58 VT 59
>gnl|CDD|227596 COG5271, MDN1, AAA ATPase containing von Willebrand factor type A
(vWA) domain [General function prediction only].
Length = 4600
Score = 29.2 bits (65), Expect = 6.8
Identities = 23/125 (18%), Positives = 38/125 (30%), Gaps = 14/125 (11%)
Query: 186 ELEPSL-----ALSRELEPLLVPPTLSRELEPLLEKEQQPQENTTTTAVTTPEVESELMI 240
EL + L L P+ PT R + L ++P T ELM
Sbjct: 3347 ELSSTFIMALSTLIMSLVPVRNTPTTLRLMWTLFANVEKPGSTFTNMVSNLITDARELMK 3406
Query: 241 KHP----LHNKWTLWYFENDKNKGWEENQREITSFS-----TEKEQQPQENTTTTAVTTP 291
P N + + ++ K+ E + + +F ++ N P
Sbjct: 3407 LTPETINDDNLSEIKHLKSRKHLLLTETFKTLKAFGLQYRVKAGIEENLSNLRNLLAVIP 3466
Query: 292 EVESE 296
V S
Sbjct: 3467 PVTSL 3471
>gnl|CDD|225309 COG2511, GatE, Archaeal Glu-tRNAGln amidotransferase subunit E
(contains GAD domain) [Translation, ribosomal structure
and biogenesis].
Length = 631
Score = 28.5 bits (64), Expect = 9.2
Identities = 20/77 (25%), Positives = 29/77 (37%), Gaps = 2/77 (2%)
Query: 163 PLLVPLALRRELELLLVVL--ELSRELEPSLALSRELEPLLVPPTLSRELEPLLEKEQQP 220
P+ + L +++ L L E LS+EL L E L+EK P
Sbjct: 437 PIRIDEELLEKIKENLPELPEEKVERYVKEYGLSKELAEQLASDPRVDLFEELVEKGVDP 496
Query: 221 QENTTTTAVTTPEVESE 237
+T T PE+ E
Sbjct: 497 TLIASTLVNTLPELRRE 513
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
0.315 0.131 0.396
Gapped
Lambda K H
0.267 0.0702 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 44354
Number of Hits to DB: 24,109,102
Number of extensions: 2328725
Number of successful extensions: 2004
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1986
Number of HSP's successfully gapped: 37
Length of query: 483
Length of database: 10,937,602
Length adjustment: 101
Effective length of query: 382
Effective length of database: 6,457,848
Effective search space: 2466897936
Effective search space used: 2466897936
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 61 (27.3 bits)