RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13048
(188 letters)
>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 = 131 bits (332), Expect = 6e-38
Identities = 80/129 (62%), Positives = 105/129 (81%), Gaps = 2/129 (1%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLL 118
A KF MYV YC+NKPDS L+++H G F+E+Q++H + + +S+YLIKPVQRITKYQLL
Sbjct: 93 WADKFQMYVTYCKNKPDSTQLILEHAGSYFDEIQQRHGLANSISSYLIKPVQRITKYQLL 152
Query: 119 LKDLQGEI-KGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDALQV 177
LK+L +G+GEIKDGLEVMLSVP++ANDA+HLS+LE D NI++ GE++LQ++ QV
Sbjct: 153 LKELLTCCEEGKGEIKDGLEVMLSVPKRANDAMHLSMLEG-FDENIESQGELILQESFQV 211
Query: 178 WDPKQLIRK 186
WDPK LIRK
Sbjct: 212 WDPKTLIRK 220
>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 = 116 bits (292), Expect = 7e-32
Identities = 46/132 (34%), Positives = 72/132 (54%), Gaps = 5/132 (3%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGGPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLL 118
H ++ +MYV YC+NKP S ++ + G FEEL+++ ++ LIKPVQRI KYQLL
Sbjct: 94 HERRLHMYVVYCQNKPKSEHVVSEFGDSYFEELRQQLGHRLQLNDLLIKPVQRIMKYQLL 153
Query: 119 LKDL----QGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LKD +++ +EVM VP++ ND + L L + + A G+++ QD
Sbjct: 154 LKDFLKYYNRAGMDTADLEQAVEVMCFVPKRCNDMMTLGRLRG-FEGKLTAQGKLLGQDT 212
Query: 175 LQVWDPKQLIRK 186
V +P+
Sbjct: 213 FWVTEPEAGGLL 224
>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 = 108 bits (272), Expect = 7e-29
Identities = 46/134 (34%), Positives = 77/134 (57%), Gaps = 5/134 (3%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGG-PLFEELQKKHRVDHPVSAYLIKPVQRITKYQL 117
++F +Y YC+NKP S +L Q P F+E QKK + +YL+KPVQRITKYQL
Sbjct: 97 RMEEFQIYEKYCQNKPRSESLWRQCSDCPFFQECQKKLDHKLSLDSYLLKPVQRITKYQL 156
Query: 118 LLKDLQ---GEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEVVLQDA 174
LLK++ +G ++++ L +L + + ND++HL + D N+ +G++++Q +
Sbjct: 157 LLKEMLKYSKHCEGAEDLQEALSSILGILKAVNDSMHLIAITG-YDGNLGDLGKLLMQGS 215
Query: 175 LQVWDPKQLIRKEV 188
VW + +V
Sbjct: 216 FSVWTDHKKGHTKV 229
>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 = 92.2 bits (229), Expect = 2e-22
Identities = 25/149 (16%), Positives = 57/149 (38%), Gaps = 20/149 (13%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGGP-------LFEELQKKHRVDHPVSAYLIKPVQR 111
+ ++F +Y YC ++ L Q L E Q+ + + L+ P+QR
Sbjct: 104 YKERFLVYGRYCSQVESASKHLDQVATAREDVQMKLEECSQRANNGRFTLRDLLMVPMQR 163
Query: 112 ITKYQLLLKDLQ---GEIKGQGEIKDGLEVMLSVPRKANDALH-----LSLLE-----AP 158
+ KY LLL++L + + ++ L+ M + + N+ +
Sbjct: 164 VLKYHLLLQELVKHTQDATEKENLRLALDAMRDLAQCVNEVKRDNETLRQITNFQLSIEN 223
Query: 159 ADVNIDAMGEVVLQDALQVWDPKQLIRKE 187
D ++ G + L++ ++ + +
Sbjct: 224 LDQSLANYGRPKIDGELKITSVERRSKTD 252
>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 = 90.8 bits (225), Expect = 4e-22
Identities = 29/150 (19%), Positives = 60/150 (40%), Gaps = 22/150 (14%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHG-----GPLFEELQKKHRVDHPVSAYLIKPVQRIT 113
+A +F +Y +C + +LV+ + + + + +YLIKP+QR+
Sbjct: 106 YADRFKLYSAFCASHTKVPKVLVKAKTDTAFKAFLDAQNPRQQHSSTLESYLIKPIQRVL 165
Query: 114 KYQLLLKDL----QGEIKGQGEIKDGLEVMLSVPRKANDALHLS-------------LLE 156
KY LLL++L E + + ++ M V N+ +
Sbjct: 166 KYPLLLRELFALTDAESEEHYHLDVAIKTMNKVASHINEMQKIHEEFGAVFDQLIAEQTG 225
Query: 157 APADVNIDAMGEVVLQDALQVWDPKQLIRK 186
+V +MG+++L ++ +P + K
Sbjct: 226 EKKEVADLSMGDLLLHTSVIWLNPPASLGK 255
>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 = 90.9 bits (225), Expect = 8e-22
Identities = 25/149 (16%), Positives = 57/149 (38%), Gaps = 20/149 (13%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGGP-------LFEELQKKHRVDHPVSAYLIKPVQR 111
+ ++F +Y YC ++ L + L E Q+ + + L+ P+QR
Sbjct: 276 YKERFLVYGRYCSQVESASKHLDRVAAAREDVQMKLEECSQRANNGRFTLRDLLMVPMQR 335
Query: 112 ITKYQLLLKDLQ---GEIKGQGEIKDGLEVMLSVPRKANDALH-----LSLLE-----AP 158
+ KY LLL++L E + ++ L+ M + + N+ +
Sbjct: 336 VLKYHLLLQELVKHTQEAMEKENLRLALDAMRDLAQCVNEVKRDNETLRQITNFQLSIEN 395
Query: 159 ADVNIDAMGEVVLQDALQVWDPKQLIRKE 187
D ++ G + L++ ++ + +
Sbjct: 396 LDQSLAHYGRPKIDGELKITSVERRSKMD 424
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 81.6 bits (202), Expect = 9e-20
Identities = 20/94 (21%), Positives = 38/94 (40%), Gaps = 7/94 (7%)
Query: 63 FNMYVHYCRNKPDSNALLVQHG---GPLFEELQKKHRVDHPVSAYLIKPVQRITKYQLLL 119
+Y+ YC N P + +L +H G E ++ L KP R+ KY LL
Sbjct: 100 KTLYLTYCANHPSAVNVLTEHSEELGEFMETKGASSPGILVLTTGLSKPFMRLDKYPTLL 159
Query: 120 KDL----QGEIKGQGEIKDGLEVMLSVPRKANDA 149
K+L + + +I+ + ++ + +
Sbjct: 160 KELERHMEDYHTDRQDIQKSMAAFKNLSAQCQEV 193
>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 = 81.5 bits (201), Expect = 1e-18
Identities = 31/151 (20%), Positives = 56/151 (37%), Gaps = 22/151 (14%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQ-----HGGPLFEELQK-KHRVDHPVSAYLIKPVQRI 112
H F +Y YC N D+ L + FE + + +D + +L+ PVQ+I
Sbjct: 125 HQDGFWIYSEYCNNHLDACMELSKLMKDSRYQHFFEACRLLQQMIDIAIDGFLLTPVQKI 184
Query: 113 TKYQLLLKDL----QGEIKGQGEIKDGLEVMLSVPRKANDA------------LHLSLLE 156
KY L L +L + + L VM +V ++ N+ S+L+
Sbjct: 185 CKYPLQLAELLKYTAQDHSDYRYVAAALAVMRNVTQQINERKRRLENIDKIAQWQASVLD 244
Query: 157 APADVNIDAMGEVVLQDALQVWDPKQLIRKE 187
D +D E++ + ++
Sbjct: 245 WEGDDILDRSSELIYTGEMAWIYQPYGRNQQ 275
>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 = 75.8 bits (186), Expect = 1e-16
Identities = 29/151 (19%), Positives = 57/151 (37%), Gaps = 22/151 (14%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQ-----HGGPLFEELQKKHRV-DHPVSAYLIKPVQRI 112
H F +Y YC N P++ L + FE + ++ D + +L+ PVQ+I
Sbjct: 202 HQADFQIYSEYCNNHPNACVELSRLTKLSKYVYFFEACRLLQKMIDISLDGFLLTPVQKI 261
Query: 113 TKYQLLLKDL----QGEIKGQGEIKDGLEVMLSVPRKANDA------------LHLSLLE 156
KY L L +L + + +++ L M +V + N+ S+ +
Sbjct: 262 CKYPLQLAELLKYTHPQHRDFKDVEAALHAMKNVAQLINERKRRLENIDKIAQWQSSIED 321
Query: 157 APADVNIDAMGEVVLQDALQVWDPKQLIRKE 187
+ + E++ L Q ++
Sbjct: 322 WEGEDLLVRSSELIYSGELTRVTQPQAKSQQ 352
>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 = 69.3 bits (169), Expect = 2e-14
Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 11/104 (10%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHG------GPLFEELQKKHRVDH-PVSAYLIKPVQR 111
Q F+ + + LL ++ E ++ + L++ VQR
Sbjct: 113 REQGFDHHATHILQFDRYLGLLSENCLHSPRLAAAVREFEQSVQGGSQTAKHRLLRVVQR 172
Query: 112 ITKYQLLLKDL----QGEIKGQGEIKDGLEVMLSVPRKANDALH 151
+ +YQ+LL D + + L ++ V +AND++
Sbjct: 173 LFQYQVLLTDYLNNLCPDSAEYDNTQGALSLISKVTDRANDSME 216
>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 = 64.6 bits (157), Expect = 7e-13
Identities = 25/154 (16%), Positives = 48/154 (31%), Gaps = 29/154 (18%)
Query: 58 AHAQKFNMYVHYCRNKPDSNALLV-------QHGGPLFEELQKKHR--VDHPVSAYLIKP 108
A F+ Y Y R+ + + + + V + + L+ P
Sbjct: 90 AEELAFDPYESYARDILRPGFHDRFLSQLSKPGAALYLQSIGEGFKEAVQYVLPRLLLAP 149
Query: 109 VQRITKYQLLLKDLQG---EIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPAD----- 160
V Y LLK L+ + + + +K + +L+V SL +
Sbjct: 150 VYHCLHYFELLKQLEEKSEDQEDKECLKQAITALLNVQSGMEKICSKSLAKRRLSESACR 209
Query: 161 ----------VNIDAMGEVVLQDALQVWDPKQLI 184
+ I M E +Q + W+ K +
Sbjct: 210 FYSQQMKGKQLAIKKMNE--IQKNIDGWEGKDIG 241
>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 = 58.2 bits (141), Expect = 1e-10
Identities = 20/71 (28%), Positives = 40/71 (56%), Gaps = 7/71 (9%)
Query: 59 HAQKFNMYVHYCRNKPDSNALLVQHGG--PLFEELQKKHRVD-----HPVSAYLIKPVQR 111
Y+ +C + + AL+ Q P F+E K+ +D P+S++++KP+QR
Sbjct: 167 QLPHMQPYIRFCSCQLNGAALIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQR 226
Query: 112 ITKYQLLLKDL 122
+T+Y L++K++
Sbjct: 227 VTRYPLIIKNI 237
>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 = 55.5 bits (134), Expect = 1e-09
Identities = 19/104 (18%), Positives = 39/104 (37%), Gaps = 16/104 (15%)
Query: 59 HAQKFNMYVHYCRNKPDSNALL--------VQHGGPLFEELQKKHRV-DHPVSAYLIKPV 109
+ Y YC N+ + ALL VQ + + + +L P
Sbjct: 101 WLPCLSSYDSYCSNQVAAKALLDHKKQDHRVQD---FLQRCLESPFSRKLDLWNFLDIPR 157
Query: 110 QRITKYQLLLKDL----QGEIKGQGEIKDGLEVMLSVPRKANDA 149
R+ KY LLL+++ + Q +++ + ++ + + N
Sbjct: 158 SRLVKYPLLLREILRHTPNDNPDQQHLEEAINIIQGIVAEINTK 201
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 53.5 bits (128), Expect = 6e-09
Identities = 22/71 (30%), Positives = 36/71 (50%), Gaps = 7/71 (9%)
Query: 59 HAQKFNMYVHYCRNKPDSNALL--VQHGGPLFEELQKKHRVD-----HPVSAYLIKPVQR 111
Y+ +C + + ALL F+E KK D P+S++L+KP+QR
Sbjct: 112 ELSHMQAYIRFCSCQLNGAALLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQR 171
Query: 112 ITKYQLLLKDL 122
IT+Y LL++ +
Sbjct: 172 ITRYPLLIRSI 182
>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 = 52.1 bits (125), Expect = 2e-08
Identities = 15/74 (20%), Positives = 30/74 (40%), Gaps = 7/74 (9%)
Query: 56 KEAHAQKFNMYVHYCRNKPDSNALL--VQHGGPLF----EELQKKHRV-DHPVSAYLIKP 108
A + + +C + + L+ Q F +E + + + +I
Sbjct: 106 GPAREELQQVAAQFCSYQSIALELIKTKQRKESRFQLFMQEAESHPQCRRLQLRDLIISE 165
Query: 109 VQRITKYQLLLKDL 122
+QR+TKY LLL+ +
Sbjct: 166 MQRLTKYPLLLESI 179
>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 = 50.7 bits (121), Expect = 5e-08
Identities = 14/74 (18%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 56 KEAHAQKFNMYVHYCRNKPDSNALL--VQHGGPLFEELQKKHRVD-----HPVSAYLIKP 108
A + + +C + + L+ Q F+ ++ + +I
Sbjct: 148 GPAREELQQVAAQFCSYQSIALELIKTKQRKESRFQLFMQEAESHPQCRRLQLRDLIISE 207
Query: 109 VQRITKYQLLLKDL 122
+QR+TKY LLL+ +
Sbjct: 208 MQRLTKYPLLLESI 221
>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 = 49.5 bits (118), Expect = 1e-07
Identities = 15/75 (20%), Positives = 29/75 (38%), Gaps = 7/75 (9%)
Query: 55 KKEAHAQKFNMYVHYCRNKPDSNALL--VQHGGPLF----EELQKKHRV-DHPVSAYLIK 107
+ + +C + + L Q P F +E + + R + +
Sbjct: 112 DGAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFVQEAESRPRCRRLQLKDMIPT 171
Query: 108 PVQRITKYQLLLKDL 122
+QR+TKY LLL+ +
Sbjct: 172 EMQRLTKYPLLLQSI 186
>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 = 49.7 bits (118), Expect = 1e-07
Identities = 15/74 (20%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 56 KEAHAQKFNMYVHYCRNKPDSNALL--VQHGGPLF----EELQKKHRV-DHPVSAYLIKP 108
+ + +C + + L Q P F +E + + R + +
Sbjct: 266 GAEGSWFQKISSRFCSRQSFALEQLKAKQRKDPRFCAFVQEAESRPRCRRLQLKDMIPTE 325
Query: 109 VQRITKYQLLLKDL 122
+QR+TKY LLL+ +
Sbjct: 326 MQRLTKYPLLLQSI 339
>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 = 49.1 bits (117), Expect = 2e-07
Identities = 13/75 (17%), Positives = 29/75 (38%), Gaps = 7/75 (9%)
Query: 55 KKEAHAQKFNMYVHYCRNKPDSNALL--VQHGGPLFEELQKKHRVD-----HPVSAYLIK 107
+ + +C N+P + ++ Q F+ + + + +
Sbjct: 110 SGPGEEKLKHAAATFCSNQPFALEMIKSRQKKDSRFQTFVQDAESNPLCRRLQLKDIIPT 169
Query: 108 PVQRITKYQLLLKDL 122
+QR+TKY LLL ++
Sbjct: 170 QMQRLTKYPLLLDNI 184
>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 = 38.5 bits (89), Expect = 8e-04
Identities = 30/149 (20%), Positives = 48/149 (32%), Gaps = 40/149 (26%)
Query: 34 ALPLPLNHSKETNEEKRKSARKKEAHAQKFNMYVHYCR------NKPDSNALL------- 80
AL L +T K K K Y+ +K ++AL
Sbjct: 103 ALAAKLLQENDTTLVKTKELIKN---------YITARIMAKRPFDKKSNSALFRAVGEGN 153
Query: 81 ----VQHGG-----PLFEELQKKHRVDHPVSAYLIKPVQRITKYQLLLKDLQGEIKGQGE 131
GG FEEL+ ++ H + LIK + L + ++ + +
Sbjct: 154 AQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSA-----ETLSELIRTTLDAEKV 208
Query: 132 IKDGLEVM--LSVPRKANDALHLSLLEAP 158
GL ++ L P D + LL P
Sbjct: 209 FTQGLNILEWLENPSNTPDKDY--LLSIP 235
>1fho_A UNC-89; pleckstrin homology domain, electrostatics, muscle, signal
transduction, signaling protein; NMR {Caenorhabditis
elegans} SCOP: b.55.1.1
Length = 119
Score = 29.5 bits (66), Expect = 0.33
Identities = 6/21 (28%), Positives = 12/21 (57%)
Query: 162 NIDAMGEVVLQDALQVWDPKQ 182
+ +G ++ DA QVW+ +
Sbjct: 3 DTGKLGRIIRHDAFQVWEGDE 23
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 1.8
Identities = 1/31 (3%), Positives = 7/31 (22%)
Query: 43 KETNEEKRKSARKKEAHAQKFNMYVHYCRNK 73
+ + + +++A
Sbjct: 101 LDAASKVMEQEWREKAKKDLEEWNQRQSEQV 131
>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 = 27.2 bits (59), Expect = 2.1
Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 24/50 (48%)
Query: 119 LKDLQGEIKGQGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGE 168
LK LQ +K L D+ APA + I A E
Sbjct: 22 LKKLQASLK------------LYAD----DS-------APA-LAIKATME 47
>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 = 26.7 bits (58), Expect = 5.3
Identities = 16/131 (12%), Positives = 43/131 (32%), Gaps = 32/131 (24%)
Query: 29 DMKVPALPLPL--NHSKETNEEK------RKSARKKEAHAQKFNMYVH--Y------CRN 72
+P + L L +++ + S +K ++ + + Y N
Sbjct: 384 SAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK--QPKESTISIPSIYLELKVKLEN 441
Query: 73 KPDSNALLVQHGGPLFEELQKKHRVDHPVSAYL----------IKPVQRITKYQLLLKD- 121
+ + +V H + + + Y I+ +R+T ++++ D
Sbjct: 442 EYALHRSIVDHYNIP-KTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDF 500
Query: 122 --LQGEIKGQG 130
L+ +I+
Sbjct: 501 RFLEQKIRHDS 511
>2xoc_A E3 ubiquitin-protein ligase CHFR; zinc-binding, poly(ADP-ribose)
mitosis, antephase checkpoint, cell cycle; HET: PGE ADP
ADE; 1.89A {Homo sapiens} PDB: 2xoy_A* 2xoz_A* 2xp0_A
Length = 261
Score = 26.3 bits (57), Expect = 6.6
Identities = 9/23 (39%), Positives = 9/23 (39%), Gaps = 3/23 (13%)
Query: 55 KKEAHAQKFNMYVHYCRNKPDSN 77
K HA KFN H C N
Sbjct: 242 VKAHHAMKFN---HICEQTRFKN 261
>3tg9_A Penicillin-binding protein; structural genomics, PSI-biology, NEW
YORK structural genomi research consortium, nysgrc;
2.20A {Bacillus halodurans}
Length = 356
Score = 26.2 bits (58), Expect = 8.2
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 92 QKKHRVDHPVSAYLIKPVQRITKYQLL 118
K D P+S +L P +T + LL
Sbjct: 71 AGKLSFDTPLSDWLDAPFPNVTIHHLL 97
>1itw_A Isocitrate dehydrogenase; greece KEY motif, oxidoreductase; HET:
ICT; 1.95A {Azotobacter vinelandii} SCOP: c.77.1.2 PDB:
1j1w_A*
Length = 741
Score = 25.8 bits (56), Expect = 10.0
Identities = 16/71 (22%), Positives = 32/71 (45%), Gaps = 7/71 (9%)
Query: 112 ITKYQLLLKDLQGEIKG--QGEIKDGLEVMLSVPRKANDALHLSLLEAPADVNIDAMGEV 169
+ + L + Q EI+ Q ++ + K LH+ P+DV +DA
Sbjct: 301 YARIKTLPEAKQKEIEADIQAVYAQRPQLAMVNSDKGITNLHV-----PSDVIVDASMPA 355
Query: 170 VLQDALQVWDP 180
+++D+ ++W P
Sbjct: 356 MIRDSGKMWGP 366
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
0.314 0.132 0.372
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,721,753
Number of extensions: 152377
Number of successful extensions: 279
Number of sequences better than 10.0: 1
Number of HSP's gapped: 246
Number of HSP's successfully gapped: 35
Length of query: 188
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 100
Effective length of database: 4,244,745
Effective search space: 424474500
Effective search space used: 424474500
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: 42 (22.0 bits)
S2: 54 (24.7 bits)