RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy11457
(315 letters)
>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 = 215 bits (549), Expect = 6e-68
Identities = 125/316 (39%), Positives = 186/316 (58%), Gaps = 33/316 (10%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+++IH+++ +MK R+E P++ ++ DL+L FDG A E Q+ AA FCS Q IALE ++
Sbjct: 72 LIEIHNSWCEAMKKLREEGPIIKEISDLMLARFDGPAREELQQVAAQFCSYQSIALELIK 131
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
++RK+SR F+ EAE +P CRRLQL+D+I + M RLTKYPLL ++ K+T +E
Sbjct: 132 TKQRKESRFQLFMQEAESHPQCRRLQLRDLIISEMQRLTKYPLLLESIIKHTEGGTSEHE 191
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
K+ RA D+ +EIL YVN+AVK+ E++HRL QKRLD T E+ NPL E+++LDLT
Sbjct: 192 KLCRARDQCREILKYVNEAVKQTENRHRLEGYQKRLDATALERASNPLAAEFKSLDLTTR 251
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPP 240
K+I+EG L R ++ K ++L+VLLLED++VLLQKQD+
Sbjct: 252 KMIHEGPLTWR--ISKDKTLDLHVLLLEDLLVLLQKQDEKLLL----------------- 292
Query: 241 PSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTS-QH 299
S SD++ P L + V D+ A +++ TS
Sbjct: 293 KCHSKTAVGSSDSKQTFSPV-------------LKLNAVLIRSVATDKRAFFIICTSKLG 339
Query: 300 SAQIYDLVASSASERK 315
QIY+LVA ++S++
Sbjct: 340 PPQIYELVALTSSDKN 355
Score = 41.7 bits (98), Expect = 2e-04
Identities = 12/26 (46%), Positives = 18/26 (69%)
Query: 261 DWTKSVPEDILRSLSPREKKRQEVIN 286
+W +V +D++ L+ RE RQEVIN
Sbjct: 2 NWQHTVGKDVVAGLTQREIDRQEVIN 27
>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 = 212 bits (542), Expect = 1e-66
Identities = 138/316 (43%), Positives = 182/316 (57%), Gaps = 35/316 (11%)
Query: 2 LDIHSTFNNSMKLKRK--ESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESL 59
L +H N MK RK E+ V+ +G+ LL F G E + AAATFCS Q ALE +
Sbjct: 76 LQLHIGLNEQMKAVRKRNETSVIDQIGEDLLTWFSGPGEEKLKHAAATFCSNQPFALEMI 135
Query: 60 RERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENEL 119
+ R++KDSR F+ +AE NPLCRRLQLKDIIPT M RLTKYPLL N+AKYT + E
Sbjct: 136 KSRQKKDSRFQTFVQDAESNPLCRRLQLKDIIPTQMQRLTKYPLLLDNIAKYT-EWPTER 194
Query: 120 TKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTR 179
KVK+A D ++ILN+VNQAVKEAE++ RL + Q+RLD + + + P V E RNLDLT+
Sbjct: 195 EKVKKAADHCRQILNFVNQAVKEAENKQRLEDYQRRLDTSSLKLSEYPNVEELRNLDLTK 254
Query: 180 HKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPP 239
K+I+EG L + R K I+LY LLLEDI+VLLQKQDD S + + S
Sbjct: 255 RKMIHEGPLVWK--VNRDKTIDLYTLLLEDILVLLQKQDDRLVLRCHSKILASTADSKHT 312
Query: 240 PPSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTSQH 299
L ++ R +V D AL++++ S +
Sbjct: 313 FSPVIK-------------------------LSTVLVR-----QVATDNKALFVISMSDN 342
Query: 300 SAQIYDLVASSASERK 315
AQIY+LVA + SE+
Sbjct: 343 GAQIYELVAQTVSEKT 358
Score = 46.0 bits (109), Expect = 7e-06
Identities = 15/28 (53%), Positives = 19/28 (67%)
Query: 259 PPDWTKSVPEDILRSLSPREKKRQEVIN 286
PP+W + V ++L L P E KRQEVIN
Sbjct: 3 PPNWQQLVSREVLLGLKPCEIKRQEVIN 30
>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 = 210 bits (536), Expect = 2e-65
Identities = 125/316 (39%), Positives = 187/316 (59%), Gaps = 33/316 (10%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+++IH+++ +MK R+E P++ ++ DL+L FDG A E Q+ AA FCS Q IALE ++
Sbjct: 114 LIEIHNSWCEAMKKLREEGPIIKEISDLMLARFDGPAREELQQVAAQFCSYQSIALELIK 173
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
++RK+SR F+ EAE +P CRRLQL+D+I + M RLTKYPLL ++ K+T +E
Sbjct: 174 TKQRKESRFQLFMQEAESHPQCRRLQLRDLIISEMQRLTKYPLLLESIIKHTEGGTSEHE 233
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
K+ RA D+ +EIL YVN+AVK+ E++HRL QKRLD T E+ NPL E+++LDLT
Sbjct: 234 KLCRARDQCREILKYVNEAVKQTENRHRLEGYQKRLDATALERASNPLAAEFKSLDLTTR 293
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPP 240
K+I+EG L R ++ K ++L+VLLLED++VLLQKQD+
Sbjct: 294 KMIHEGPLTWR--ISKDKTLDLHVLLLEDLLVLLQKQDEKLLL----------------- 334
Query: 241 PSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTSQHS 300
S SD++ P L + V D+ A +++ TS+
Sbjct: 335 KCHSKTAVGSSDSKQTFSPV-------------LKLNAVLIRSVATDKRAFFIICTSKLG 381
Query: 301 -AQIYDLVASSASERK 315
QIY+LVA ++S++
Sbjct: 382 PPQIYELVALTSSDKN 397
Score = 54.2 bits (130), Expect = 2e-08
Identities = 23/66 (34%), Positives = 33/66 (50%), Gaps = 3/66 (4%)
Query: 221 KSFDSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKK 280
+S +SPS + P + SD E EPD +W +V +D++ L+ RE
Sbjct: 7 RSIESPSLG---FCTDTLLPHLLEDDLGQLSDLEPEPDAQNWQHTVGKDVVAGLTQREID 63
Query: 281 RQEVIN 286
RQEVIN
Sbjct: 64 RQEVIN 69
>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 = 207 bits (527), Expect = 1e-64
Identities = 127/315 (40%), Positives = 186/315 (59%), Gaps = 34/315 (10%)
Query: 2 LDIHSTFNNSMKLKRKES-PVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+++HS F + + +R+ES ++ ++GD+LL FDGA G FQ+ ++ FCSRQ ALE L+
Sbjct: 79 IEVHSLFLDRLMKRRQESGYLIEEIGDVLLARFDGAEGSWFQKISSRFCSRQSFALEQLK 138
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
++RKD R AF+ EAE P CRRLQLKD+IPT M RLTKYPLL ++ + T + E
Sbjct: 139 AKQRKDPRFCAFVQEAESRPRCRRLQLKDMIPTEMQRLTKYPLLLQSIGQNTEEPT-ERE 197
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
KV+ A + +EIL++VNQAV++ ED RL + Q+RLD + + +P+++E++NLD+T+
Sbjct: 198 KVELAAECCREILHHVNQAVRDMEDLLRLKDYQRRLDLSHLRQSSDPMLSEFKNLDITKK 257
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPP 240
KL++EG L R T+ K +E++VLLL+D+++LLQ+QD+ S
Sbjct: 258 KLVHEGPLTWR--VTKDKAVEVHVLLLDDLLLLLQRQDERLLLKS--------------- 300
Query: 241 PSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTSQHS 300
P P T P L S R EV D A Y++ T
Sbjct: 301 ----------HSRTLTPTPDGKTMLRPVLRLTSAMTR-----EVATDHKAFYVLFTWDQE 345
Query: 301 AQIYDLVASSASERK 315
AQIY+LVA + SERK
Sbjct: 346 AQIYELVAQTVSERK 360
Score = 46.8 bits (111), Expect = 5e-06
Identities = 15/32 (46%), Positives = 19/32 (59%)
Query: 255 AEPDPPDWTKSVPEDILRSLSPREKKRQEVIN 286
+ PP W + VP D L SL + KRQEVI+
Sbjct: 2 IQTSPPGWEELVPPDTLHSLPKSQVKRQEVIS 33
>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 = 195 bits (497), Expect = 1e-58
Identities = 124/315 (39%), Positives = 186/315 (59%), Gaps = 34/315 (10%)
Query: 2 LDIHSTFNNSMKLKRKES-PVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+++HS F + + +R+ES ++ ++GD+LL FDGA G FQ+ ++ FCSRQ ALE L+
Sbjct: 232 IEVHSLFLDRLMKRRQESGYLIEEIGDVLLARFDGAEGSWFQKISSRFCSRQSFALEQLK 291
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
++RKD R AF+ EAE P CRRLQLKD+IPT M RLTKYPLL ++ + T + E
Sbjct: 292 AKQRKDPRFCAFVQEAESRPRCRRLQLKDMIPTEMQRLTKYPLLLQSIGQNTEEPT-ERE 350
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
KV+ A + +EIL++VNQAV++ ED RL + Q+RLD + + +P+++E++NLD+T+
Sbjct: 351 KVELAAECCREILHHVNQAVRDMEDLLRLKDYQRRLDLSHLRQSSDPMLSEFKNLDITKK 410
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPP 240
KL++EG L R T+ K +E++VLLL+D+++LLQ+QD+ S S +
Sbjct: 411 KLVHEGPLTWR--VTKDKAVEVHVLLLDDLLLLLQRQDERLLLKSHSRTLTPTP------ 462
Query: 241 PSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTSQHS 300
D T P + +EV D A Y++ T
Sbjct: 463 ---------DGKTMLRPVLRLTSAMT---------------REVATDHKAFYVLFTWDQE 498
Query: 301 AQIYDLVASSASERK 315
AQIY+LVA + SERK
Sbjct: 499 AQIYELVAQTVSERK 513
Score = 52.0 bits (124), Expect = 1e-07
Identities = 19/62 (30%), Positives = 27/62 (43%)
Query: 225 SPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEV 284
+P S + + + P P +PP W + VP D L SL + KRQEV
Sbjct: 125 APPESTDEGAETESPEPGDEGEPGRSGLELEPEEPPGWRELVPPDTLHSLPKSQVKRQEV 184
Query: 285 IN 286
I+
Sbjct: 185 IS 186
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 164 bits (417), Expect = 3e-47
Identities = 67/323 (20%), Positives = 133/323 (41%), Gaps = 23/323 (7%)
Query: 1 MLDIHSTFNNSMKLKRK---ESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALE 57
++ ++ ++++++K E V +GD+L +A FCS Q
Sbjct: 78 LIMSNTKLLKALRVRKKTGGEKMPVQMIGDILAAELS------HMQAYIRFCSCQLNGAA 131
Query: 58 SLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNEN 117
L+++ +D+ FL + +P C+ + L + M R+T+YPLL ++ + T ++
Sbjct: 132 LLQQKTDEDTDFKEFLKKLASDPRCKGMPLSSFLLKPMQRITRYPLLIRSILENTPESHA 191
Query: 118 ELTKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDL 177
+ + +K AL+R++E+ + VN+ V+E E+ RL IQ + E + L+ L
Sbjct: 192 DHSSLKLALERAEELCSQVNEGVREKENSDRLEWIQAHVQ---CEGLAEQLIFNSLTNCL 248
Query: 178 TRHKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSG 237
KL++ G L + EL+ L D ++L + S++
Sbjct: 249 GPRKLLHSGKLYK-----TKSNKELHGFLFNDFLLLTYMVKQFAVSSGSEKLFSSKSNAQ 303
Query: 238 PP---PPSSSSRVPWDSDTEAEPDPPDWTKSVPEDI--LRSLSPREKKRQ-EVINDRSAL 291
P + V T+ D P + S + + LR+ + E+ + I S
Sbjct: 304 FKMYKTPIFLNEVLVKLPTDPSSDEPVFHISHIDRVYTLRTDNINERTAWVQKIKAASEQ 363
Query: 292 YLVNTSQHSAQIYDLVASSASER 314
Y+ + + Y + S
Sbjct: 364 YIDTEKKQREKAYQARSQKTSGI 386
Score = 31.5 bits (71), Expect = 0.32
Identities = 6/31 (19%), Positives = 11/31 (35%)
Query: 256 EPDPPDWTKSVPEDILRSLSPREKKRQEVIN 286
+ ++ P E+KRQ I+
Sbjct: 3 HHHHHSSGRENLYFQGDTMQPIERKRQGYIH 33
>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 = 160 bits (407), Expect = 5e-47
Identities = 48/315 (15%), Positives = 115/315 (36%), Gaps = 49/315 (15%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
++ +H + ++ RK VG +L+ + ++CS Q A L
Sbjct: 70 LIPLHEELLSQLRDVRKPDGSTEHVGPILVGWLP------CLSSYDSYCSNQVAAKALL- 122
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
+ +++D R+ FL +P R+L L + + RL KYPLL + ++T ++ +
Sbjct: 123 DHKKQDHRVQDFLQRCLESPFSRKLDLWNFLDIPRSRLVKYPLLLREILRHTPNDNPDQQ 182
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
++ A++ + I+ +N E+E ++ + E + L++ R
Sbjct: 183 HLEEAINIIQGIVAEINTKTGESECRYYKERLLYLE-----EGQKDSLIDSSR------- 230
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPP 240
L G L+ + ++L+V L ++++V+ + ++ P
Sbjct: 231 VLCCHGELK------NNRGVKLHVFLFQEVLVITRAVTHNEQ--------LCYQLYRQPI 276
Query: 241 PSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSALYLVNTSQHS 300
P + + + + +R ++ + +
Sbjct: 277 PVKDLTL----------------EDLQDGEVRLGGSLRGAFSNNERVKNFFRVSFKNGSQ 320
Query: 301 AQIYDLVASSASERK 315
+Q + L A+ ++
Sbjct: 321 SQTHSLQANDTFNKQ 335
Score = 37.0 bits (86), Expect = 0.006
Identities = 7/24 (29%), Positives = 12/24 (50%)
Query: 263 TKSVPEDILRSLSPREKKRQEVIN 286
+ + + L+ +E KRQE I
Sbjct: 2 SSGSSGCVNQVLTAKEIKRQEAIF 25
>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 = 135 bits (341), Expect = 6e-38
Identities = 37/156 (23%), Positives = 77/156 (49%), Gaps = 9/156 (5%)
Query: 1 MLDIHSTFNNSMKLKRK---ESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALE 57
++ + ++++++K E V +GD+L + FCS Q
Sbjct: 133 LIMCNIKLLKALRVRKKMSGEKMPVKMIGDILSAQLP------HMQPYIRFCSCQLNGAA 186
Query: 58 SLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNEN 117
++++ + F+ ++P C+ + L I M R+T+YPL+ N+ + T +N
Sbjct: 187 LIQQKTDEAPDFKEFVKRLAMDPRCKGMPLSSFILKPMQRVTRYPLIIKNILENTPENHP 246
Query: 118 ELTKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQ 153
+ + +K AL++++E+ + VN+ V+E E+ RL IQ
Sbjct: 247 DHSHLKHALEKAEELCSQVNEGVREKENSDRLEWIQ 282
Score = 36.7 bits (85), Expect = 0.006
Identities = 16/78 (20%), Positives = 23/78 (29%), Gaps = 14/78 (17%)
Query: 209 DIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPE 268
II +L K+D S S+ P
Sbjct: 25 QIINVLNKEDPDWWKGEVSGQVGLFPSN--------------YVKLTTDMDPSQQWCSDL 70
Query: 269 DILRSLSPREKKRQEVIN 286
+L L+P E+KRQ I+
Sbjct: 71 HLLDMLTPTERKRQGYIH 88
>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 = 139 bits (352), Expect = 1e-37
Identities = 43/223 (19%), Positives = 92/223 (41%), Gaps = 22/223 (9%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+L +H+ F MK + +P ++ + + + +CS+ + A + L
Sbjct: 246 LLRVHTHFLKEMK-EALGTPGAANLYQVFIKYKE------RFLVYGRYCSQVESASKHLD 298
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
+ L E R L+D++ M R+ KY LL L K+T + E
Sbjct: 299 RVAAAREDVQMKLEECSQRANNGRFTLRDLLMVPMQRVLKYHLLLQELVKHTQEAM-EKE 357
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
++ ALD +++ VN+ ++ E ++ Q + E +D L +
Sbjct: 358 NLRLALDAMRDLAQCVNEVKRDNETLRQITNFQLSI-----ENLDQSLAHY--------G 404
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSF 223
+ +G L++ + R+ ++ Y LL+ +++ +++ DS
Sbjct: 405 RPKIDGELKI-TSVERRSKMDRYAFLLDKALLICKRRGDSYDL 446
>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 = 134 bits (339), Expect = 1e-36
Identities = 42/223 (18%), Positives = 88/223 (39%), Gaps = 22/223 (9%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+ +H+ F +K P + + + + +CS+ + A + L
Sbjct: 74 LFSVHTHFLKELK-DALAGPGATTLYQVFIKYKE------RFLVYGRYCSQVESASKHLD 126
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
+ + L E R L+D++ M R+ KY LL L K+T + E
Sbjct: 127 QVATAREDVQMKLEECSQRANNGRFTLRDLLMVPMQRVLKYHLLLQELVKHT-QDATEKE 185
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
++ ALD +++ VN+ ++ E ++ Q + E +D L N
Sbjct: 186 NLRLALDAMRDLAQCVNEVKRDNETLRQITNFQLSI-----ENLDQSLANY--------G 232
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSF 223
+ +G L++ + R+ + Y LL+ +++ +++ DS
Sbjct: 233 RPKIDGELKI-TSVERRSKTDRYAFLLDKALLICKRRGDSYDL 274
>2lg1_A A-kinase anchor protein 13; metal binding protein; NMR {Homo
sapiens}
Length = 185
Score = 101 bits (252), Expect = 3e-26
Identities = 46/204 (22%), Positives = 81/204 (39%), Gaps = 45/204 (22%)
Query: 112 TVDNENELTKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNE 171
T DNE E + ++L K+++ V+ V E + RL EI + D ++ +
Sbjct: 3 TKDNEVEQEDLAQSLSLVKDVIGAVDSKVASYEKKVRLNEIYTKTDSKSIMRMKSGQ--M 60
Query: 172 YRNLDLTRHKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCE 231
+ DL R KL+ +G++ L+ +L E+ +LL DI+V LQ++D F S
Sbjct: 61 FAKEDLKRKKLVRDGSVFLK--NAAGRLKEVQAVLLTDILVFLQEKDQKYIFASLDQKST 118
Query: 232 AVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPEDILRSLSPREKKRQEVINDRSAL 291
+S L+ L RE ++ L
Sbjct: 119 VIS------------------------------------LKKLIVREV-----AHEEKGL 137
Query: 292 YLVNTSQHSAQIYDLVASSASERK 315
+L++ ++ ++ ASS ER
Sbjct: 138 FLISMGMTDPEMVEVHASSKEERN 161
>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 = 104 bits (262), Expect = 8e-26
Identities = 42/223 (18%), Positives = 87/223 (39%), Gaps = 20/223 (8%)
Query: 1 MLDIHSTFNNSMKLK-RKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESL 59
+ F ++ + + P + ++G L+ DG F + +C+ A L
Sbjct: 93 IYRFQMGFVRDLEKQYNNDDPHLSEIGPCFLEHQDG-----FW-IYSEYCNNHLDACMEL 146
Query: 60 RERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENEL 119
+ KDSR F L + + + T + ++ KYPL A L KYT + ++
Sbjct: 147 -SKLMKDSRYQHFFEACRLLQQMIDIAIDGFLLTPVQKICKYPLQLAELLKYTAQDHSDY 205
Query: 120 TKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTR 179
V AL + + +N+ + E+ ++A+ Q + + + +++
Sbjct: 206 RYVAAALAVMRNVTQQINERKRRLENIDKIAQWQASVL----DWEGDDILDRSS------ 255
Query: 180 HKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKS 222
+LIY G + I + + L + +VL +K +
Sbjct: 256 -ELIYTGEMA-WIYQPYGRNQQRVFFLFDHQMVLCKKDLIRRD 296
Score = 29.8 bits (67), Expect = 1.1
Identities = 11/45 (24%), Positives = 16/45 (35%), Gaps = 4/45 (8%)
Query: 246 RVPWDSDTEAEP----DPPDWTKSVPEDILRSLSPREKKRQEVIN 286
V + E P + S + R L R++ R VIN
Sbjct: 3 WVNQEDGVEEGPSDVQNGHLDPNSDCLCLGRPLQNRDQMRANVIN 47
>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 = 104 bits (260), Expect = 2e-25
Identities = 45/223 (20%), Positives = 86/223 (38%), Gaps = 20/223 (8%)
Query: 1 MLDIHSTFNNSMKLK-RKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESL 59
+ F +++ + +E P + ++G L+ FQ + +C+ A L
Sbjct: 170 IYRCQKAFVKALEQRFNRERPHLSELGACFLEHQAD-----FQ-IYSEYCNNHPNACVEL 223
Query: 60 RERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENEL 119
R K S+ F L + L + T + ++ KYPL A L KYT +
Sbjct: 224 -SRLTKLSKYVYFFEACRLLQKMIDISLDGFLLTPVQKICKYPLQLAELLKYTHPQHRDF 282
Query: 120 TKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTR 179
V+ AL K + +N+ + E+ ++A+ Q ++ E L+
Sbjct: 283 KDVEAALHAMKNVAQLINERKRRLENIDKIAQWQSSIEDWEGE----DLLVRSS------ 332
Query: 180 HKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKS 222
+LIY G L R+ + K + L + ++ +K +
Sbjct: 333 -ELIYSGELT-RVTQPQAKSQQRMFFLFDHQLIYCKKDLLRRD 373
Score = 34.2 bits (78), Expect = 0.053
Identities = 12/79 (15%), Positives = 25/79 (31%), Gaps = 6/79 (7%)
Query: 209 DIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPE 268
D+I ++ + + E + + P D D P +
Sbjct: 53 DVIEVMDATNREWWWG-RVADGEGWFPASFVRLRVNQDEPADDD-----APLAGNSGAED 106
Query: 269 DILRSLSPREKKRQEVIND 287
+ S +++ R VIN+
Sbjct: 107 GGAEAQSSKDQMRTNVINE 125
>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 = 101 bits (252), Expect = 2e-24
Identities = 40/241 (16%), Positives = 79/241 (32%), Gaps = 22/241 (9%)
Query: 2 LDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLRE 61
D+H ++ + V D+ L AT + L L E
Sbjct: 83 HDLHQGILEELEERLSNWESQQKVADVFLAREQ------GFDHHATHILQFDRYLGLLSE 136
Query: 62 RRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELTK 121
RL A + E E + K + + RL +Y +L + + E
Sbjct: 137 NCLHSPRLAAAVREFEQSVQGGSQTAKHRLLRVVQRLFQYQVLLTDYLNNLCPDSAEYDN 196
Query: 122 VKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRHK 181
+ AL ++ + N ++++ E+ +L I+ + L+ R
Sbjct: 197 TQGALSLISKVTDRANDSMEQGENLQKLVHIEHSVRGQG------DLLQPGRE------- 243
Query: 182 LIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPPP 241
+ EG L + T + ++ L+ D+++ Q D K + + + S P
Sbjct: 244 FLKEGTL---MKVTGKNRRPRHLFLMNDVLLYTYPQKDGKYRLKNTLAVANMKVSRPVME 300
Query: 242 S 242
Sbjct: 301 K 301
>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 = 82.7 bits (204), Expect = 4e-18
Identities = 41/252 (16%), Positives = 89/252 (35%), Gaps = 27/252 (10%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAA-GEAFQRAA------ATFCSRQQ 53
M++ F +++ + P + + + + G +F A + FC+
Sbjct: 62 MVEFQVEFLKTLEDGVRLVPDLEKLEKVDQFKKVLFSLGGSFLYYADRFKLYSAFCASHT 121
Query: 54 IALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKD--IIPTGMLRLTKYPLLFANLAKY 111
+ L + + D+ AFL +A+ L+ I P + R+ KYPLL L
Sbjct: 122 KVPKVLVKAK-TDTAFKAFL-DAQNPRQQHSSTLESYLIKP--IQRVLKYPLLLRELFAL 177
Query: 112 TVDNENELTKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNE 171
T E + A+ ++ +++N+ K E+ + + ++V
Sbjct: 178 TDAESEEHYHLDVAIKTMNKVASHINEMQKIHEEFGAVFDQLIAEQTGEKKEVA------ 231
Query: 172 YRNLDLTRHKLIYEGNLQLRIATT----RQKLIELYVLLLEDIIVLLQKQDDSKSFDSPS 227
DL+ L+ ++ +K EL + + +VL+ K +
Sbjct: 232 ----DLSMGDLLLHTSVIWLNPPASLGKWKKEPELAAFVFKTAVVLVYKDGSKQKKKLVG 287
Query: 228 NSCEAVSSSGPP 239
+ ++ P
Sbjct: 288 SHRLSIYEEWDP 299
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 76.6 bits (189), Expect = 8e-17
Identities = 29/156 (18%), Positives = 53/156 (33%), Gaps = 14/156 (8%)
Query: 2 LDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLRE 61
S++ K VG L++ + T+C+ A+ L E
Sbjct: 65 CSFQQMLVQSLEECTKLPEAQQRVGGCFLNLMPQ-----MKTLYLTYCANHPSAVNVLTE 119
Query: 62 RRRKDSRLNAFLTEAELNPLCRRLQLKD--IIPTGMLRLTKYPLLFANLAKYTVDNENEL 119
L F+ E + L L P +RL KYP L L ++ D +
Sbjct: 120 ---HSEELGEFM-ETKGASSPGILVLTTGLSKP--FMRLDKYPTLLKELERHMEDYHTDR 173
Query: 120 TKVKRALDRSKEILNYVNQAVKEAEDQHR-LAEIQK 154
+++++ K + + K E + + L E +
Sbjct: 174 QDIQKSMAAFKNLSAQCQEVRKRKELELQILTEAIR 209
>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 = 61.9 bits (150), Expect = 5e-11
Identities = 28/245 (11%), Positives = 78/245 (31%), Gaps = 26/245 (10%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGD---VGDLLLDMFDGAAGEAFQRAAATFCSRQQIALE 57
+ ++ ++ + + VG D+ + A + ++ ++
Sbjct: 55 IHELSVKLLGHIEDTVEMTDEGSPHPLVGSCFEDLAEELAFDPYE----SYARDILRPGF 110
Query: 58 SLR--ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDN 115
R + K + E + L ++ + Y L L + + D
Sbjct: 111 HDRFLSQLSKPGAALYLQSIGEGFKEAVQYVLPRLLLAPVYHCLHYFELLKQLEEKSEDQ 170
Query: 116 ENELTKVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPL------- 168
E + +K+A+ + + + + ++ + RL+E R + +
Sbjct: 171 E-DKECLKQAITALLNVQSGMEKICSKSLAKRRLSESACRFYSQQMKGKQLAIKKMNEIQ 229
Query: 169 ----VNEYRNLDLTRHKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFD 224
E +++ ++ I EG L + E ++ L + +++ +
Sbjct: 230 KNIDGWEGKDIGQCCNEFIMEG--TLTRVGAKH---ERHIFLFDGLMICCKSNHGQPRLP 284
Query: 225 SPSNS 229
SN+
Sbjct: 285 GASNA 289
>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 = 60.6 bits (147), Expect = 1e-10
Identities = 32/228 (14%), Positives = 66/228 (28%), Gaps = 35/228 (15%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+ + H + + + P + L + +C + + +
Sbjct: 65 IYEWHRDYFLQELQRCLKDPD--WLAQLFIKHERR-----LH-MYVVYCQNKPKSEHVVS 116
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
E +++ E L RLQL D++ + R+ KY LL + KY +
Sbjct: 117 EFG------DSYF-EELRQQLGHRLQLNDLLIKPVQRIMKYQLLLKDFLKYYNRAGMDTA 169
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
+++A++ + N + RL + +L L
Sbjct: 170 DLEQAVEVMCFVPKRCN----DMMTLGRLRGFEGKL-------------TAQGKLLGQDT 212
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSN 228
+ E + E V L E II+ + +
Sbjct: 213 FWVTEPEAGGL---LSSRGRERRVFLFEQIIIFSEALGGGVRGGTQPG 257
>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 = 50.2 bits (120), Expect = 2e-07
Identities = 34/225 (15%), Positives = 70/225 (31%), Gaps = 41/225 (18%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+ + H+ K ++ P DVG + + FQ T+C + + + +
Sbjct: 64 IYEFHNNIFLKELEKYEQLPE--DVGHCFVTW-----ADKFQ-MYVTYCKNKPDSTQLIL 115
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
E ++ E + + + + R+TKY LL L + + E+
Sbjct: 116 EHA------GSYFDEIQQR-HGLANSISSYLIKPVQRITKYQLLLKELLTCCEEGKGEI- 167
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRH 180
K L+ + N +A L + + L L
Sbjct: 168 --KDGLEVMLSVPKRAN----DAMHLSMLEGFDENI-------------ESQGELILQES 208
Query: 181 KLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDS 225
+++ +R R ++ L E +V ++ DS
Sbjct: 209 FQVWDPKTLIRKGRER------HLFLFEMSLVFSKEVKDSSGRSK 247
>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 = 50.2 bits (119), Expect = 5e-07
Identities = 44/262 (16%), Positives = 79/262 (30%), Gaps = 67/262 (25%)
Query: 8 FNNSMKLKRKESP-VVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLRERRRKD 66
+ + ++ P V L + E+ + AT+ + + + + L +
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSII----AESIRDGLATWDNWKHVNCDKLTTII--E 360
Query: 67 SRLNAFLTEAELNPLCRRLQL--KDI-IPTGML-----------------RLTKYPLLFA 106
S LN L AE + RL + IPT +L +L KY L+
Sbjct: 361 SSLNV-LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEK 419
Query: 107 NLAKYTV-----------DNENELTKVKRALDRSKEILNY-VNQAVKEAEDQ-------H 147
+ T+ ENE + +D + + + DQ H
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 148 RLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRHKLIYEGNLQLRIATTRQKLIEL----- 202
L I+ T F V + + K+ ++ + L +L
Sbjct: 480 HLKNIEHPERMTLFRMV-------FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532
Query: 203 --------YVLLLEDIIVLLQK 216
Y L+ I+ L K
Sbjct: 533 YICDNDPKYERLVNAILDFLPK 554
Score = 42.5 bits (99), Expect = 1e-04
Identities = 44/276 (15%), Positives = 90/276 (32%), Gaps = 65/276 (23%)
Query: 5 HSTFN-NSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLRE-- 61
H F + + K+ ++ D +D FD + ++ + I +
Sbjct: 6 HMDFETGEHQYQYKD--ILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSG 63
Query: 62 --------RRRKDSRLNAFLTEAELNP----LCRRLQLKDIIPTGMLRLTKYPL--LFAN 107
+++ + F+ E L L ++ + P+ M R+ L+ +
Sbjct: 64 TLRLFWTLLSKQEEMVQKFVEEV-LRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYND 122
Query: 108 ---LAKYTVDNENELTKVKRAL--DRS-------------KEILNYVNQAVKEAEDQHRL 149
AKY V K+++AL R K + + Q ++
Sbjct: 123 NQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV--ALDVCLSYKVQCKM 180
Query: 150 AE----IQKRLDRTPFEKVDNPLVNEYRNLDLTRHKLI-YEGNLQLRIATTRQKLIEL-- 202
+ + +P E V L +D + N++LRI + + +L L
Sbjct: 181 DFKIFWLNLKNCNSP-ETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLK 239
Query: 203 ---YV---LLLEDIIVLLQKQDDS--KSFDSPSNSC 230
Y L+L ++ Q+ +F+ SC
Sbjct: 240 SKPYENCLLVLLNV------QNAKAWNAFN---LSC 266
>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 = 48.4 bits (115), Expect = 1e-06
Identities = 37/230 (16%), Positives = 72/230 (31%), Gaps = 31/230 (13%)
Query: 1 MLDIHSTFNNSMKLKRKESPVVGDVGDLLLDMFDGAAGEAFQRAAATFCSRQQIALESLR 60
+ H+ + P VG L+ + FQ +C + + R
Sbjct: 68 IYHFHNRIFLRELESCIDCPE--LVGRCFLERMEE-----FQ-IYEKYCQNKPRSESLWR 119
Query: 61 ERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKYPLLFANLAKYTVDNENELT 120
+ F E + L +L L + + R+TKY LL + KY+ +
Sbjct: 120 QCSD-----CPFFQECQ-KKLDHKLSLDSYLLKPVQRITKYQLLLKEMLKYS-KHCEGAE 172
Query: 121 KVKRALDRSKEILNYVNQAVKEAEDQHRLAEIQKRLDR-TPFEKVDNPLVNEYRNLDLTR 179
++ AL IL VN ++ + L + V T+
Sbjct: 173 DLQEALSSILGILKAVN----DSMHLIAITGYDGNLGDLGKLLMQGSFSVWTDHKKGHTK 228
Query: 180 HKLIYEGNLQLRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNS 229
K + R ++ L E ++ +K++++ + S
Sbjct: 229 VKELARFKPMQR-----------HLFLHEKAVLFCKKREENGEGYEKAPS 267
>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 = 44.3 bits (104), Expect = 4e-05
Identities = 39/219 (17%), Positives = 62/219 (28%), Gaps = 52/219 (23%)
Query: 86 QLKDI------IPTGMLRLTKYPLLFANL-AKYT--VDNENELTKVKRALDRSKEILNYV 136
QL++ PT P A L K+ V + E +KV + L
Sbjct: 32 QLQEQFNKILPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEF 91
Query: 137 NQAVKEAEDQHRLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRHKL-------------- 182
E D H LA + + T K + N + +
Sbjct: 92 ENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGE 151
Query: 183 ----IY-----EGNLQ-----LRIATTRQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSN 228
+ +GN LR L + Y +L+ D+I + +
Sbjct: 152 GNAQLVAIFGGQGNTDDYFEELR------DLYQTYHVLVGDLIKFSAETLSELIRTTL-- 203
Query: 229 SCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVP 267
E V + G W + PD D+ S+P
Sbjct: 204 DAEKVFTQGLNILE------WLENPSNTPD-KDYLLSIP 235
Score = 36.2 bits (83), Expect = 0.015
Identities = 21/123 (17%), Positives = 36/123 (29%), Gaps = 45/123 (36%)
Query: 12 MKLKRKESPVVGDV------------GDLLLDM-----------FDGAAGEAFQRAAATF 48
M L K S DV G +LD+ F G G +R +
Sbjct: 1633 MDL-YKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKG---KRIRENY 1688
Query: 49 CSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDII---PTGMLRLTKY--PL 103
+ E++ + + K ++ + E G+L T++ P
Sbjct: 1689 ---SAMIFETIVDGKLKTEKIFKEINE----------HSTSYTFRSEKGLLSATQFTQPA 1735
Query: 104 LFA 106
L
Sbjct: 1736 LTL 1738
Score = 35.0 bits (80), Expect = 0.033
Identities = 29/136 (21%), Positives = 48/136 (35%), Gaps = 35/136 (25%)
Query: 41 FQR--AAATFCSRQQIALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRL 98
F R R ++ + R+ A ++ L + R+ + TG L
Sbjct: 1787 FYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR----TGWL-- 1840
Query: 99 TKYPLLFANLAKYTVDN-ENELTKV----KRALDRSKEILNYVN-QAVKEAEDQHRLAEI 152
+ N N EN+ V RALD +LN++ Q + + E+
Sbjct: 1841 ----VEIVN------YNVENQQY-VAAGDLRALDTVTNVLNFIKLQKID-------IIEL 1882
Query: 153 QKRLDRTPFEKVDNPL 168
QK L E+V+ L
Sbjct: 1883 QKSL---SLEEVEGHL 1895
>2kpy_A Major pollen allergen ART V 1; defensin-like, poly-proline; NMR
{Artemisia vulgaris}
Length = 108
Score = 29.8 bits (66), Expect = 0.47
Identities = 12/46 (26%), Positives = 15/46 (32%)
Query: 224 DSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPED 269
S S + G PP ++ P P PP S P D
Sbjct: 53 CSKSPPGATPAPPGAAPPPAAGGSPSPPADGGSPPPPADGGSPPVD 98
>1zlg_A Anosmin 1; insulin-like growth factor receptor Cys-rich fold, WHEY
acidic protein fold, fibronectin type III fold, hormone-
growth factor complex; NMR {Homo sapiens}
Length = 680
Score = 30.7 bits (68), Expect = 0.68
Identities = 9/48 (18%), Positives = 18/48 (37%)
Query: 224 DSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPEDIL 271
+ P+ + PP + S + +P P + K +P +L
Sbjct: 619 EGPATIKTFRTPELPPSSAHRSHLKHRHPHHYKPSPERYGKPIPNPLL 666
>2dpm_A M.dpnii 1, protein (adenine-specific methyltransferase dpnii 1);
DNA adenine methyltransferase, methylase; HET: SAM;
1.80A {Streptococcus pneumoniae} SCOP: c.66.1.28
Length = 284
Score = 30.0 bits (68), Expect = 0.85
Identities = 17/67 (25%), Positives = 30/67 (44%), Gaps = 10/67 (14%)
Query: 144 EDQHRLAEIQKRLDRTPFEKV-----DNPLVNE-YRNLDLTRHKLIYEGNLQLRIATTRQ 197
DQ RL + KRL T V + LV E Y++ ++ + + +++R
Sbjct: 217 ADQVRLRDAFKRLSDTGA-YVMLSNSSSALVEELYKDFNIHYVEATRTNGAK---SSSRG 272
Query: 198 KLIELYV 204
K+ E+ V
Sbjct: 273 KISEIIV 279
>1ujy_A RHO guanine nucleotide exchange factor 6; structural genomics, SH3
domain, riken structural genomics/proteomics initiative,
RSGI; NMR {Homo sapiens} SCOP: b.34.2.1
Length = 76
Score = 28.0 bits (63), Expect = 0.99
Identities = 12/45 (26%), Positives = 19/45 (42%), Gaps = 12/45 (26%)
Query: 209 DIIVLLQKQDD--------SKS--FDSPSNSCEAVSSSGPPPPSS 243
DII + + ++ ++ F PSN + SS PSS
Sbjct: 33 DIIYVTRVEEGGWWEGTLNGRTGWF--PSNYVREIKSSERSGPSS 75
>2i0n_A Class VII unconventional myosin; beta-sheet loop, structural
protein; NMR {Dictyostelium discoideum}
Length = 80
Score = 27.7 bits (62), Expect = 1.1
Identities = 13/47 (27%), Positives = 18/47 (38%), Gaps = 13/47 (27%)
Query: 209 DIIVLLQKQDDSK-----------SFDSPSNSCEAVSSSGPPPPSSS 244
DII + K ++K SF P + E + S PPP
Sbjct: 33 DIITITFKDQENKWFMGQLNGKEGSF--PVDHVEILLSDVPPPQPVH 77
>2e8o_A SAM domain and HD domain-containing protein 1; cell-free protein
synthesis, protein regulation, structural genomics,
NPPSFA; NMR {Homo sapiens}
Length = 103
Score = 27.5 bits (61), Expect = 1.9
Identities = 14/57 (24%), Positives = 19/57 (33%), Gaps = 6/57 (10%)
Query: 234 SSSGPPPPSSSSRVPWDSDTEAEPDPPDWTKSVPEDI---LRSLSPREKKRQEVIND 287
SS + S+ W E PD W PE + LR E + I +
Sbjct: 2 SSGSSGSNTPSAEADWSPGLELHPDYKTWG---PEQVCSFLRRGGFEEPVLLKNIRE 55
>5rub_A Rubisco (ribulose-1,5-bisphosphate carboxylase(slash)oxygenase);
lyase(carbon-carbon); 1.70A {Rhodospirillum rubrum}
SCOP: c.1.14.1 d.58.9.1 PDB: 1rus_A 2rus_A 9rub_A*
1rba_A
Length = 490
Score = 28.7 bits (63), Expect = 2.5
Identities = 4/25 (16%), Positives = 7/25 (28%)
Query: 38 GEAFQRAAATFCSRQQIALESLRER 62
+ RA +F R+
Sbjct: 454 HKELARAFESFPGDADQIYPGWRKA 478
>2pbi_A Regulator of G-protein signaling 9; helix WRAP, RGS domain, DEP
domain, DHEX domain, GGL domain, propeller, signaling
protein; 1.95A {Mus musculus}
Length = 424
Score = 28.2 bits (62), Expect = 3.4
Identities = 23/132 (17%), Positives = 39/132 (29%), Gaps = 12/132 (9%)
Query: 143 AEDQHRLAEIQKRLDRTPFE-------KVDNPLVNEYRNLDLTRHKLIYEGNLQLRIATT 195
A++Q+R + + + DR + V LD ++ ++ + T
Sbjct: 164 AKEQYRTGKERNKADRYALDCQEKAYWLVHRSPPGMNNVLDYGLDRVTNPNEVKKQTVTA 223
Query: 196 RQKLIELYVLLLEDIIVLLQKQDDSKSFDSPSNSCEAVSSSGPPPPSSSSRVPWDSDTEA 255
+K I Y L S S E SS+ PW +D
Sbjct: 224 VRKEIMYYQQALMR-----STVKSSVSLGGIVKYSEQFSSNDAIMSGCLPSNPWITDDTQ 278
Query: 256 EPDPPDWTKSVP 267
D +P
Sbjct: 279 FWDLNAKLVEIP 290
>2xs1_A Programmed cell death 6-interacting protein; protein
transport-viral protein complex, cell cycle; 2.30A {Homo
sapiens} PDB: 2xs8_A 2oev_A 2r05_A 2r02_A 2r03_A 2oex_A
2ojq_A
Length = 704
Score = 28.4 bits (62), Expect = 3.4
Identities = 33/195 (16%), Positives = 73/195 (37%), Gaps = 8/195 (4%)
Query: 31 DMFDGAAGEAFQRAAATFCSRQQIALESLRER-RRKDSRLNAFLTEAELNPLCRRLQLKD 89
D+F+ + Q++ A + R+ + + R + N L L + D
Sbjct: 359 DLFEKMVPVSVQQSLAAYNQRKADLVNRSIAQMREATTLANGVLASLNLPAAIEDVS-GD 417
Query: 90 IIPTGMLRLTKYPLLFANLAKYTVDNENELTKVKRALDRSKEILNYVNQAVK--EAEDQH 147
+P +L ++ + + + + ++ L R++EIL+ + + EA D
Sbjct: 418 TVPQSILTKSRSVIEQGGIQTV----DQLIKELPELLQRNREILDESLRLLDEEEATDND 473
Query: 148 RLAEIQKRLDRTPFEKVDNPLVNEYRNLDLTRHKLIYEGNLQLRIATTRQKLIELYVLLL 207
A+ ++R RTP ++ PL E N K + + + I L
Sbjct: 474 LRAKFKERWQRTPSNELYKPLRAEGTNFRTVLDKAVQADGQVKECYQSHRDTIVLLCKPE 533
Query: 208 EDIIVLLQKQDDSKS 222
++ + + +K+
Sbjct: 534 PELNAAIPSANPAKT 548
>2g1p_A DNA adenine methylase; DAM methylation, GATC recognition, base
flipping, bacterial factor, transferase-DNA complex;
HET: DNA SAH; 1.89A {Escherichia coli} PDB: 2ore_D*
Length = 278
Score = 27.3 bits (61), Expect = 6.2
Identities = 19/65 (29%), Positives = 25/65 (38%), Gaps = 10/65 (15%)
Query: 144 EDQHRLAEIQKRLDRTPFEKV-----DNPLVNE-YRNLDLTRHKLIYEGNLQLRIATTRQ 197
E Q LAEI + L V D L E Y+ L K+ + TR+
Sbjct: 204 EQQAHLAEIAEGLVERHI-PVLISNHDTMLTREWYQRAKLHVVKVRRSIS---SNGGTRK 259
Query: 198 KLIEL 202
K+ EL
Sbjct: 260 KVDEL 264
>2o3e_A Neurolysin; thermolysin-like domain, substrate-binding channel,
hydrolase; 2.20A {Rattus norvegicus} PDB: 1i1i_P
Length = 678
Score = 27.2 bits (61), Expect = 8.3
Identities = 11/112 (9%), Positives = 34/112 (30%), Gaps = 17/112 (15%)
Query: 55 ALESLRERRRKDSRLNAFLTEAELNPLCRRLQLKDIIPTGMLRLTKY-------PLLFAN 107
L + + + F + R + +L+++ +F
Sbjct: 68 VLADIEVTYIVERTMLDFPQHVSSDREVRAAS-TEADK----KLSRFDIEMSMREDVFQR 122
Query: 108 LAK-YTVDNENELTKV-KRALDRSKEILNYVNQAVK-EAEDQHRLAEIQKRL 156
+ + ++ +R L+ K I + ++ + ++KR+
Sbjct: 123 IVHLQETCDLEKIKPEARRYLE--KSIKMGKRNGLHLSEHIRNEIKSMKKRM 172
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
0.315 0.131 0.364
Gapped
Lambda K H
0.267 0.0468 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 4,623,812
Number of extensions: 275578
Number of successful extensions: 665
Number of sequences better than 10.0: 1
Number of HSP's gapped: 633
Number of HSP's successfully gapped: 61
Length of query: 315
Length of database: 6,701,793
Length adjustment: 93
Effective length of query: 222
Effective length of database: 4,105,140
Effective search space: 911341080
Effective search space used: 911341080
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: 57 (26.4 bits)