RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7075
(135 letters)
>3jv3_A Intersectin-1; SH3 domain, DH domain, guanine nucleotide exchange
factor, autoinhibition, domain-swapped, cell junction,
cell project endocytosis; 2.40A {Mus musculus} PDB:
3gf9_A
Length = 283
Score = 102 bits (256), Expect = 9e-28
Identities = 56/104 (53%), Positives = 76/104 (73%), Gaps = 1/104 (0%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSS-KGDIRMIGD 63
L ++F+KPL ES++LT +E IFVNWKE+I+CN L+ALRVR+ MS K ++MIGD
Sbjct: 103 LVTEIFQKPLTESELLTEKEVAMIFVNWKELIMCNIKLLKALRVRKKMSGEKMPVKMIGD 162
Query: 64 ILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
IL LP M Y+RFCSCQL+ AAL+Q+ TD++P+FK K+
Sbjct: 163 ILSAQLPHMQPYIRFCSCQLNGAALIQQKTDEAPDFKEFVKRLA 206
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 97.8 bits (243), Expect = 4e-25
Identities = 53/104 (50%), Positives = 67/104 (64%), Gaps = 1/104 (0%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSS-KGDIRMIGD 63
L +VF+K + ES LT E IFVNWKE+I+ N L+ALRVR+ K ++MIGD
Sbjct: 48 LVVEVFQKRMAESGFLTEGEMALIFVNWKELIMSNTKLLKALRVRKKTGGEKMPVQMIGD 107
Query: 64 ILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
IL L M AY+RFCSCQL+ AALLQ+ TD+ +FK KK
Sbjct: 108 ILAAELSHMQAYIRFCSCQLNGAALLQQKTDEDTDFKEFLKKLA 151
>1txd_A RHO guanine nucleotide exchange factor 12; helical bundle (DH),
beta sandwich (PH), signaling protein; 2.13A {Homo
sapiens} SCOP: a.87.1.1 b.55.1.1 PDB: 1x86_A
Length = 385
Score = 91.9 bits (228), Expect = 3e-23
Identities = 23/109 (21%), Positives = 42/109 (38%), Gaps = 6/109 (5%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ QVF + + IL+ E +IF N ++I+ + ++ R + I IG+
Sbjct: 45 VLDQVFYQRVSREGILSPSELRKIFSNLEDILQLHIGLNEQMKAVRKRNETSVIDQIGED 104
Query: 65 LCEHL------PRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
L A FCS Q A +++ + F+T +
Sbjct: 105 LLTWFSGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFQTFVQDAE 153
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 90.6 bits (225), Expect = 6e-23
Identities = 29/103 (28%), Positives = 48/103 (46%), Gaps = 3/103 (2%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
L ++ + P+ + I+T +E QIF +I + L LR R G +G I
Sbjct: 40 LAKKAYHDPMLKLSIMTEQELNQIFGTLDSLIPLHEELLSQLRDVRKPD--GSTEHVGPI 97
Query: 65 LCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
L LP +++Y +CS Q++A ALL Q + ++C
Sbjct: 98 LVGWLPCLSSYDSYCSNQVAAKALLDHKK-QDHRVQDFLQRCL 139
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 89.7 bits (222), Expect = 4e-22
Identities = 29/109 (26%), Positives = 42/109 (38%), Gaps = 7/109 (6%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ +F +P+ E EE IF + E+I + +FL L RR S I IGD+
Sbjct: 201 VLHDLFFQPMAECLFFPLEELQNIFPSLDELIEVHSLFLDRLMKRR-QESGYLIEEIGDV 259
Query: 65 LCEHLPRMTA------YVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
L RFCS Q A L+ + P F ++
Sbjct: 260 LLARFDGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFVQEAE 308
>3p6a_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 2.50A {Homo
sapiens} PDB: 3odo_A
Length = 377
Score = 87.3 bits (216), Expect = 1e-21
Identities = 29/109 (26%), Positives = 42/109 (38%), Gaps = 7/109 (6%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ +F +P+ E EE IF + E+I + +FL L RR S I IGD+
Sbjct: 48 VLHDLFFQPMAECLFFPLEELQNIFPSLDELIEVHSLFLDRLMKRR-QESGYLIEEIGDV 106
Query: 65 LCEHLPRMT------AYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
L RFCS Q A L+ + P F ++
Sbjct: 107 LLARFDGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFVQEAE 155
>1xcg_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; X-RAY
crystallography, regulation of RHOA GTPase, protein
complex; 2.50A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 3kz1_A*
Length = 368
Score = 84.1 bits (208), Expect = 2e-20
Identities = 21/109 (19%), Positives = 47/109 (43%), Gaps = 8/109 (7%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ +F + +K+ ++ REE ++F N E+I ++ + A++ R+ I+ I D+
Sbjct: 42 VLDLIFYQRMKKENLMPREELARLFPNLPELIEIHNSWCEAMKKLREEGP--IIKEISDL 99
Query: 65 LCEHLPR------MTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
+ +FCS Q A L++ + F+ ++
Sbjct: 100 MLARFDGPAREELQQVAAQFCSYQSIALELIKTKQRKESRFQLFMQEAE 148
>3t06_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; DH-PH RHOA
complex, pdzrhogef, guanine nucleotide exchange F RHOA,
signaling protein; 2.84A {Homo sapiens}
Length = 418
Score = 84.2 bits (208), Expect = 2e-20
Identities = 21/109 (19%), Positives = 47/109 (43%), Gaps = 8/109 (7%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ +F + +K+ ++ REE ++F N E+I ++ + A++ R+ I+ I D+
Sbjct: 84 VLDLIFYQRMKKENLMPREELARLFPNLPELIEIHNSWCEAMKKLRE--EGPIIKEISDL 141
Query: 65 LCEHLP------RMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
+ +FCS Q A L++ + F+ ++
Sbjct: 142 MLARFDGPAREELQQVAAQFCSYQSIALELIKTKQRKESRFQLFMQEAE 190
>2pz1_A RHO guanine nucleotide exchange factor 4; helical bundle, beta
barrel, beta sandwich, signaling protei; 2.25A {Homo
sapiens} PDB: 2dx1_A 3nmz_D 3nmx_D
Length = 466
Score = 83.1 bits (205), Expect = 6e-20
Identities = 21/104 (20%), Positives = 46/104 (44%), Gaps = 3/104 (2%)
Query: 5 LCRQVFEKPLKE-SKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGD 63
+ + + ++ + + + E+ IF N ++I C F++AL R + + + +G
Sbjct: 139 DICEGYVRQCRKRADMFSEEQLRTIFGNIEDIYRCQKAFVKALEQRFNRE-RPHLSELGA 197
Query: 64 ILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
EH Y +C+ +A L +LT + ++ + CR
Sbjct: 198 CFLEHQADFQIYSEYCNNHPNACVELSRLT-KLSKYVYFFEACR 240
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 75.0 bits (185), Expect = 6e-18
Identities = 20/96 (20%), Positives = 43/96 (44%), Gaps = 3/96 (3%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+ +PL+ S+ L+ + N +EI M +++L + + +G
Sbjct: 34 TVLSTYLRPLQTSEKLSSANISYLMGNLEEICSFQQMLVQSLEECTKLPE--AQQRVGGC 91
Query: 65 LCEHLPRM-TAYVRFCSCQLSAAALLQKLTDQSPEF 99
+P+M T Y+ +C+ SA +L + +++ EF
Sbjct: 92 FLNLMPQMKTLYLTYCANHPSAVNVLTEHSEELGEF 127
>1foe_A T-lymphoma invasion and metastasis inducing protein 1; DBL homology
domain, pleckstrin homology domain, GTPase, guanine
nucleotide exchange factor; 2.80A {Mus musculus} SCOP:
a.87.1.1 b.55.1.1
Length = 377
Score = 76.6 bits (188), Expect = 1e-17
Identities = 22/114 (19%), Positives = 38/114 (33%), Gaps = 12/114 (10%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVR-----------RDMS 53
+ + KPL++ LT++E +F N E++ FL+ L +
Sbjct: 32 CLMERYLKPLQKETFLTQDELDVLFGNLTEMVEFQVEFLKTLEDGVRLVPDLEKLEKVDQ 91
Query: 54 SKGDIRMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
K + +G + R Y FC+ +L K FK
Sbjct: 92 FKKVLFSLGGSFLYYADRFKLYSAFCASHTKVPKVLVKA-KTDTAFKAFLDAQN 144
>2dfk_A Collybistin II; DH domain, PH domain, cell cycle; 2.15A {Rattus
norvegicus} SCOP: a.87.1.1 b.55.1.1
Length = 402
Score = 75.7 bits (186), Expect = 3e-17
Identities = 23/104 (22%), Positives = 40/104 (38%), Gaps = 3/104 (2%)
Query: 5 LCRQVFEKPL-KESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGD 63
+ + K K + + E+ IF N ++I F+R L + + + IG
Sbjct: 62 DICEGYLKQCRKRRDMFSDEQLKVIFGNIEDIYRFQMGFVRDLEKQYNNDD-PHLSEIGP 120
Query: 64 ILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
EH Y +C+ L A L KL + ++ + CR
Sbjct: 121 CFLEHQDGFWIYSEYCNNHLDACMELSKLM-KDSRYQHFFEACR 163
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 75.3 bits (185), Expect = 4e-17
Identities = 23/103 (22%), Positives = 45/103 (43%), Gaps = 5/103 (4%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+Q F KPL+ + L ++ IFVN +E+ + FL+ L+ + +
Sbjct: 46 SIQQHFMKPLQ--RFLKPQDMETIFVNIEELFSVHTHFLKELKDALAGP---GATTLYQV 100
Query: 65 LCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
++ R Y R+CS SA+ L ++ + + ++C
Sbjct: 101 FIKYKERFLVYGRYCSQVESASKHLDQVATAREDVQMKLEECS 143
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 73.9 bits (181), Expect = 1e-16
Identities = 20/103 (19%), Positives = 46/103 (44%), Gaps = 5/103 (4%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDI 64
+Q F KPL+ + L ++ IF+N ++++ + FL+ ++ + +
Sbjct: 218 SIQQHFLKPLQ--RFLKPQDIEIIFINIEDLLRVHTHFLKEMKEALGTP---GAANLYQV 272
Query: 65 LCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
++ R Y R+CS SA+ L ++ + + ++C
Sbjct: 273 FIKYKERFLVYGRYCSQVESASKHLDRVAAAREDVQMKLEECS 315
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 64.2 bits (156), Expect = 3e-13
Identities = 16/112 (14%), Positives = 27/112 (24%), Gaps = 11/112 (9%)
Query: 5 LCRQVFEKPLKE---------SKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSK 55
F + L REE Q I + L L R +S+
Sbjct: 43 HLNLDFHGAVMRALDDMDHEGRDTLAREELRQGLSELPAIHDLHQGILEELEER--LSNW 100
Query: 56 GDIRMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
+ + D+ + LL + SP ++
Sbjct: 101 ESQQKVADVFLAREQGFDHHATHILQFDRYLGLLSENCLHSPRLAAAVREFE 152
>1dbh_A Protein (human SOS 1); guanine nucleotide exchange factor, gene
regulation; 2.30A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 1pms_A 1awe_A
Length = 354
Score = 58.0 bits (140), Expect = 5e-11
Identities = 17/108 (15%), Positives = 36/108 (33%), Gaps = 4/108 (3%)
Query: 5 LCRQVFEKPL-KESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIR-MIG 62
L +VF +P SK+ + + IF +I + L + +M+ +G ++G
Sbjct: 24 LIIKVFREPFVSNSKLFSANDVENIFSRIVDIHELSVKLLGHIEDTVEMTDEGSPHPLVG 83
Query: 63 DILCEHLPR--MTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCRW 108
+ Y + L + L+ S + +
Sbjct: 84 SCFEDLAEELAFDPYESYARDILRPGFHDRFLSQLSKPGAALYLQSIG 131
>1nty_A Triple functional domain protein; DBL, pleckstrin, GEF, RHO,
GTPase, guanine-nucleotide releas factor,
phosphorylation, signaling protein; 1.70A {Homo sapiens}
SCOP: a.87.1.1 b.55.1.1 PDB: 2nz8_B 2kr9_A
Length = 311
Score = 48.6 bits (116), Expect = 8e-08
Identities = 15/108 (13%), Positives = 31/108 (28%), Gaps = 10/108 (9%)
Query: 5 LCRQVFEKPLKESKIL----TREEHGQIFVNWKEII-VCNHMFLRALRVRRDMSSKGDIR 59
C + + + IF N +EI N++FL+ L +
Sbjct: 30 ECMDTYLWEMTSGVEEIPPGIVNKELIIFGNMQEIYEFHNNIFLKELEKYEQLPED---- 85
Query: 60 MIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
+G + YV +C + + L+ + +
Sbjct: 86 -VGHCFVTWADKFQMYVTYCKNKPDSTQLILEHAGSYFDEIQQRHGLA 132
>2rgn_B RHOA/RAC/CDC42 exchange factor; heterotrimeric G-protein, small
molecular weight G-protein, complex, protein-protein
complex, rhogef, galphaq; HET: GDP; 3.50A {Homo sapiens}
Length = 354
Score = 47.2 bits (112), Expect = 2e-07
Identities = 14/114 (12%), Positives = 35/114 (30%), Gaps = 6/114 (5%)
Query: 5 LCRQVFEKPLKESKIL--TREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIG 62
+ + + + R +F N ++I + + R +
Sbjct: 33 QIVEGYMATMAAQGVPESLRGRDRIVFGNIQQIYEWHRDYFLQELQRCLKDPD----WLA 88
Query: 63 DILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLLE 116
+ +H R+ YV +C + + ++ + D E R L++
Sbjct: 89 QLFIKHERRLHMYVVYCQNKPKSEHVVSEFGDSYFEELRQQLGHRLQLNDLLIK 142
>1kz7_A Guanine nucleotide exchange factor DBS; guanine nucleotide exchange
factor (GEF), small G-protein, signaling protein; 2.40A
{Mus musculus} SCOP: a.87.1.1 b.55.1.1 PDB: 1lb1_A
1kzg_A 1rj2_A
Length = 353
Score = 45.3 bits (107), Expect = 1e-06
Identities = 14/109 (12%), Positives = 36/109 (33%), Gaps = 11/109 (10%)
Query: 5 LCRQVFEKPLKES------KILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDI 58
+ + + + + +F N +EI ++ +
Sbjct: 32 CVLEGYAAEMDNPLMAHLISTGLQNKKNILFGNMEEIYHFHNRIFLRELESCIDCPE--- 88
Query: 59 RMIGDILCEHLPRMTAYVRFCSCQLSAAALLQKLTDQSPEFKTISKKCR 107
++G E + Y ++C + + +L ++ +D P F+ KK
Sbjct: 89 -LVGRCFLERMEEFQIYEKYCQNKPRSESLWRQCSDC-PFFQECQKKLD 135
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 39.5 bits (91), Expect = 1e-04
Identities = 23/139 (16%), Positives = 46/139 (33%), Gaps = 14/139 (10%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFV-NWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGD 63
L Q+ S + + + ++ + + L V ++ + +
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAF-N 263
Query: 64 ILCEHL--PRMTAYVRFCS----CQLSAAALLQKLTDQSPEFKTISKKCRWISRIFLL-- 115
+ C+ L R F S +S LT E K++ K R L
Sbjct: 264 LSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTP--DEVKSLLLKYLDC-RPQDLPR 320
Query: 116 ETETISPL-LKLISPLLKE 133
E T +P L +I+ +++
Sbjct: 321 EVLTTNPRRLSIIAESIRD 339
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 36.3 bits (83), Expect = 0.001
Identities = 16/96 (16%), Positives = 33/96 (34%), Gaps = 7/96 (7%)
Query: 8 QVFEKPL-KESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIR-MIGDIL 65
+VF +P SK+ + + IF +I + L + +M+ +G ++G
Sbjct: 224 KVFREPFVSNSKLFSANDVENIFSRIVDIHELSVKLLGHIEDTVEMTDEGSPHPLVGSCF 283
Query: 66 CEHLPR--MTAYVRFCSCQLSAAA---LLQKLTDQS 96
+ Y + L L +L+
Sbjct: 284 EDLAEELAFDPYESYARDILRPGFHDRFLSQLSKPG 319
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 29.2 bits (65), Expect = 0.38
Identities = 11/57 (19%), Positives = 25/57 (43%), Gaps = 13/57 (22%)
Query: 84 SAAALLQKLTDQSPEFKTI-SKKC---RWI-------SRIFLLETETIS-PLLKLIS 128
+A L +L + + + + ++ W+ + +LL + IS PL+ +I
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLL-SIPISCPLIGVIQ 245
Score = 27.7 bits (61), Expect = 1.2
Identities = 20/149 (13%), Positives = 46/149 (30%), Gaps = 52/149 (34%)
Query: 10 FEKPLKESKILTREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHL 69
F++ L LT E+ ++ +I H L + + +++
Sbjct: 80 FDQVLN--LCLTEFENC--YLEGNDI----HALAAKL----LQENDTTLVKTKELI---- 123
Query: 70 PRMTAYVRFCSC------QLSAAALLQKLTDQSPEFKTISKKCRWISRIF---------- 113
Y+ + S +AL + + + ++ IF
Sbjct: 124 ---KNYITARIMAKRPFDKKSNSALFRAV--GEGNAQLVA--------IFGGQGNTDDYF 170
Query: 114 --LLET-ET----ISPLLKLISPLLKEIV 135
L + +T + L+K + L E++
Sbjct: 171 EELRDLYQTYHVLVGDLIKFSAETLSELI 199
Score = 27.3 bits (60), Expect = 1.9
Identities = 12/73 (16%), Positives = 20/73 (27%), Gaps = 31/73 (42%)
Query: 5 LCRQVFEKPLKESKILTREEHGQIFVNWKEIIVCN--HM--F-------LRALRVRRDMS 53
+ + P V W+ H+ F L L R+
Sbjct: 479 IVDCIIRLP----------------VKWETTTQFKATHILDFGPGGASGLGVL-THRNKD 521
Query: 54 SKGDIRMI--GDI 64
G +R+I G +
Sbjct: 522 GTG-VRVIVAGTL 533
>3k1f_M Transcription initiation factor IIB; RNA polymerase II, TFIIB,
transcription factor, DNA-binding, DNA-directed RNA
polymerase; 4.30A {Saccharomyces cerevisiae}
Length = 197
Score = 28.1 bits (62), Expect = 0.84
Identities = 16/83 (19%), Positives = 27/83 (32%), Gaps = 22/83 (26%)
Query: 21 TREEHGQIFVNWKEIIVCNHMFLRALRVRRDMSSKGDIRMIGDILCEHLPRMTAYVRFCS 80
+ G+ N ++ C + ++ S GD++C C
Sbjct: 7 IDKRAGRRGPNLNIVLTCPECKVYPPKIVERFSE-------GDVVCAL----------CG 49
Query: 81 CQLSAAALLQKLTDQSPEFKTIS 103
LS KL D E++T S
Sbjct: 50 LVLS-----DKLVDTRSEWRTFS 67
>3n6o_A Guanine nucleotide exchange factor;
phosphatidylinositol-4-phosphate, membrane, RAB, LCV, P
rabgef, signaling protein; 2.50A {Legionella
pneumophila} PDB: 3l0m_A
Length = 311
Score = 27.5 bits (60), Expect = 1.4
Identities = 7/40 (17%), Positives = 20/40 (50%)
Query: 95 QSPEFKTISKKCRWISRIFLLETETISPLLKLISPLLKEI 134
E++ ++K +++ L+T ++S K++ + I
Sbjct: 261 SKDEYRILAKGQGLTTQLLGLKTSSVSSFEKMVEETRESI 300
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 26.5 bits (57), Expect = 2.9
Identities = 5/17 (29%), Positives = 8/17 (47%), Gaps = 3/17 (17%)
Query: 116 ETETISPL---LKLISP 129
E + + L LKL +
Sbjct: 18 EKQALKKLQASLKLYAD 34
>1nq7_A Nuclear receptor ROR-beta; ligand-binding domain, retinoids,
retinoic acid, synthetic ligand, antagonist,
transcription; HET: ARL; 1.50A {Rattus norvegicus} SCOP:
a.123.1.1 PDB: 1k4w_A* 1n4h_A*
Length = 244
Score = 25.6 bits (56), Expect = 5.7
Identities = 9/49 (18%), Positives = 18/49 (36%), Gaps = 6/49 (12%)
Query: 86 AALLQKLTDQSPEFKTISKKCRWISRIFLLETETISPLLKLISPLLKEI 134
A L+ K+ P + ++ + + + L PL KE+
Sbjct: 200 AKLIAKI----PTITAVCNLH--GEKLQVFKQSHPDIVNTLFPPLYKEL 242
>3dss_B Geranylgeranyl transferase type-2 subunit beta; protein
prenylation, metal-binding, prenyltransferase, zinc,
phosphoprotein; 1.80A {Rattus norvegicus} SCOP:
a.102.4.3 PDB: 1ltx_B* 3c72_B* 1dce_B 3dst_B* 3dsu_B*
3dsv_B* 3dsw_B* 3dsx_B* 3hxb_B* 3hxc_B* 3hxd_B* 3hxe_B*
3hxf_B* 3pz1_B* 3pz2_B* 3pz3_B*
Length = 331
Score = 25.1 bits (54), Expect = 8.8
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 5/37 (13%)
Query: 75 YVRFCSCQLSAAALLQKLTDQSPEFKTISKKCRWISR 111
RF C ++ ALL KL + K ++
Sbjct: 142 DTRFSFCAVATLALLGKLDA-----INVEKAIEFVLS 173
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.328 0.139 0.420
Gapped
Lambda K H
0.267 0.0593 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,076,379
Number of extensions: 113679
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 266
Number of HSP's successfully gapped: 32
Length of query: 135
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 51
Effective length of database: 4,356,429
Effective search space: 222177879
Effective search space used: 222177879
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.8 bits)
S2: 52 (24.1 bits)