RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy318
(438 letters)
>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 = 72.2 bits (176), Expect = 1e-13
Identities = 69/478 (14%), Positives = 149/478 (31%), Gaps = 108/478 (22%)
Query: 13 KQY---YEKLSNNEIQEDKHQEQIVKQLDNVYVSIKNYAPQS---KSMFSFFQDKVKQ-- 64
Y + + Q ++Q D +Y + +A + + + + +
Sbjct: 89 INYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
Query: 65 P-KGLYIYGAVGGGKTMLMDIFYESC-ETKQKQRVHFNKFMLDVHAKIHEVKKILARDKA 122
P K + I G +G GKT + + C K + ++ F F L++ + + +L +
Sbjct: 149 PAKNVLIDGVLGSGKTWVA---LDVCLSYKVQCKMDFKIFWLNL-KNCNSPETVLEMLQK 204
Query: 123 KSY--DPGVPNRLDVMKEEE-EKERERERERERERERERERE-------REAKSYDPIPP 172
Y DP +R D + + R + + E + AK+++
Sbjct: 205 LLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWN---- 260
Query: 173 VANDIISKTWLICFDEFQVTDIADAMILKRL--------FTELFQLGVVVVATSNRAPDD 224
A ++ K L + QVTD A + T +++ R P D
Sbjct: 261 -AFNLSCKILLTTRFK-QVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCR-PQD 317
Query: 225 L------------------YKNGLQRSNFLPFIDVLKTYCDVASLNSNIDYRSLKANAEE 266
L ++GL + ++ K L + I+ SL E
Sbjct: 318 LPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDK-------LTTIIE-SSLN-VLEP 368
Query: 267 SSTKTYFVKNFANEKKLHGIFKLLCSQENDIVRPRVITIMGRNVTFNKTCGQILEATFDE 326
+ + F + +F + + +++++ +V + ++ ++
Sbjct: 369 AEYRKMF-DRLS-------VF-----PPSAHIPTILLSLIWFDVIKS-DVMVVV----NK 410
Query: 327 LCSRDLGSSD------YLHICQIFHTVIIRNVPQLNIKLRSQSRRFITLIDALYDNNIRL 380
L L + + V + N L+ + I +D++ +
Sbjct: 411 LHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYN-----IPKTFDSDDLI 465
Query: 381 VISSDVPLNKLFS------NEAVIDTHSDEHRMLMDDLN-IKA---NDGTDANLKSNI 428
D +S RM+ D ++ +D T N +I
Sbjct: 466 PPYLD---QYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSI 520
>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 = 49.3 bits (117), Expect = 2e-06
Identities = 83/538 (15%), Positives = 147/538 (27%), Gaps = 188/538 (34%)
Query: 3 GTTSDS-SLPSKQY--YEKLSNNEIQEDKHQEQIVKQLDNVYVSI-KNYAPQSK----SM 54
G+ +P+ + +L QEQ K L + P +
Sbjct: 14 GSLEHVLLVPTASFFIASQL----------QEQFNKILPEPTEGFAADDEPTTPAELVGK 63
Query: 55 FSFFQDKVKQPKGLYIYGAVGGGKTMLMDIFYESCETKQKQRVHF-NKFML--DVHAKIH 111
F + + +P + + V L F N ++ D+HA
Sbjct: 64 FLGYVSSLVEPSKVGQFDQV------LNLCL-----------TEFENCYLEGNDIHA--- 103
Query: 112 EVKKILARDKAKSYDPGVPNRLDVMKEEEEKERERERERERERER---EREREREAKSYD 168
LA + D + +++K +R +++ E A+
Sbjct: 104 -----LAAKLLQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLV- 157
Query: 169 PIPPVANDIISKTWLI---------CFDEFQ---------VTDIADAM--ILKRL----- 203
I F+E + V D+ L L
Sbjct: 158 --------------AIFGGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTL 203
Query: 204 -FTELFQLGVVVVA---TSNRAPDDLYKNGLQRSNFLPFIDV--LKTYCDVASLNSNIDY 257
++F G+ ++ + PD Y + S P I V L Y A
Sbjct: 204 DAEKVFTQGLNILEWLENPSNTPDKDYLLSIPIS--CPLIGVIQLAHYVVTA-------- 253
Query: 258 RSLKANAEESSTKTYFVKNFANEKKLHGIFKLLCSQENDIVRPRVITIMGRNVTFNKTCG 317
+ L E L G SQ +V I +F +
Sbjct: 254 KLLGFTPGELR------------SYLKGA--TGHSQ--GLVTAVAIAETDSWESFFVSVR 297
Query: 318 QILEATF------------DELCSRDLGSSDY---------LHICQIFHTVIIRNVPQLN 356
+ + F L L S L I + + V + N
Sbjct: 298 KAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTN 357
Query: 357 IKLRSQSRRFITLID------------ALYDNNIRL--------VISSDVPLN--KL-FS 393
L + + I+L++ +LY N+ L + S +P + KL FS
Sbjct: 358 SHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFS 417
Query: 394 NE-AVIDT--HSD---------EHRMLMDDLNIKA----------NDGTD-ANLKSNI 428
N + + HS ++ ++++ A DG+D L +I
Sbjct: 418 NRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI 475
Score = 42.0 bits (98), Expect = 4e-04
Identities = 47/276 (17%), Positives = 81/276 (29%), Gaps = 100/276 (36%)
Query: 4 TTSDSSLPSKQYYEKLSNNE--------IQEDKHQEQIVKQLD--N--------VYVSIK 45
++SLP + L NNE I + QEQ+ ++ N V +S+
Sbjct: 313 AYPNTSLPPSILEDSLENNEGVPSPMLSIS-NLTQEQVQDYVNKTNSHLPAGKQVEISLV 371
Query: 46 NYAPQS-------KSMFSFFQD--KVKQPKGLYIYGAVGGGKTMLMDIFYESCETKQKQR 96
N ++ +S++ K K P GL + +R
Sbjct: 372 N-GAKNLVVSGPPQSLYGLNLTLRKAKAPSGL------------------DQSRIPFSER 412
Query: 97 -VHF-NKFMLDVHAKIH-----EVKKILARD------KAKSYDPGVP-----NRLDVMKE 138
+ F N+F L V + H ++ +D + D +P + D+
Sbjct: 413 KLKFSNRF-LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDL--- 468
Query: 139 EEEKEREREREREREREREREREREAKSYDPI--PPV---ANDIISKTWLICFDEFQVTD 193
R + D I PV T ++ F +
Sbjct: 469 -----------------RVLSGSISERIVDCIIRLPVKWETTTQFKATHILDFGPGGASG 511
Query: 194 IADAMILKRLFTELFQ---LGVVVVATSNRAPDDLY 226
+ L + V+V T + PDD Y
Sbjct: 512 LGV------LTHRNKDGTGVRVIVAGTLDINPDDDY 541
>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 = 42.2 bits (98), Expect = 6e-05
Identities = 8/22 (36%), Positives = 13/22 (59%), Gaps = 3/22 (13%)
Query: 30 QEQIVKQLDNVYVSIKNYAPQS 51
++Q +K+L S+K YA S
Sbjct: 18 EKQALKKLQA---SLKLYADDS 36
Score = 29.1 bits (64), Expect = 1.6
Identities = 7/31 (22%), Positives = 13/31 (41%), Gaps = 5/31 (16%)
Query: 153 EREREREREREAKSYDP--IPPVANDIISKT 181
E++ ++ + K Y P +A I T
Sbjct: 18 EKQALKKLQASLKLYADDSAPALA---IKAT 45
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 40.5 bits (94), Expect = 4e-04
Identities = 15/80 (18%), Positives = 32/80 (40%), Gaps = 11/80 (13%)
Query: 87 ESCETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLD--VMKEEEEKER 144
E E+ +K R K L +V + R+KAK L+ ++ E+ E+
Sbjct: 83 EP-ESIRKWREEQRK-RLQELDAASKVMEQEWREKAKKD-------LEEWNQRQSEQVEK 133
Query: 145 EREREREREREREREREREA 164
+ R ++ ++ + +
Sbjct: 134 NKINNRIADKAFYQQPDADI 153
Score = 40.1 bits (93), Expect = 5e-04
Identities = 11/36 (30%), Positives = 19/36 (52%), Gaps = 5/36 (13%)
Query: 131 NRLDVMKEEEEKEREREREREREREREREREREAKS 166
+ D + +E E R+ RE +R+R +E +A S
Sbjct: 75 AQADRLTQEPESIRKW-----REEQRKRLQELDAAS 105
Score = 40.1 bits (93), Expect = 5e-04
Identities = 9/47 (19%), Positives = 23/47 (48%), Gaps = 6/47 (12%)
Query: 128 GVPNRL----DVMKE--EEEKEREREREREREREREREREREAKSYD 168
+RL + +++ EE+++R +E + + + RE+ K +
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE 121
Score = 34.7 bits (79), Expect = 0.027
Identities = 5/34 (14%), Positives = 14/34 (41%)
Query: 132 RLDVMKEEEEKEREREREREREREREREREREAK 165
RL + + + RE+ ++ E + + +
Sbjct: 97 RLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ 130
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control factor;
HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11
c.37.1.20
Length = 389
Score = 35.5 bits (81), Expect = 0.030
Identities = 29/204 (14%), Positives = 54/204 (26%), Gaps = 43/204 (21%)
Query: 50 QSKSMFSFFQDKVKQ----PKGLYIYGAVGGGKT-MLMDIFYESCETKQKQRVHFNKFML 104
Q + + + ++ + G G GKT L ++ + + V+ N F+
Sbjct: 25 QLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIY 84
Query: 105 DVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREA 164
I + A+S + P R E E RER+
Sbjct: 85 RNFTAII-------GEIARSLNIPFPRRGLSRDEFLALLVEHLRERDL------------ 125
Query: 165 KSYDPIPPVANDIISKTWLICFDEFQVTDIADAMILKRLFTELFQLG---VVVVATSNRA 221
+ D+ RL E +LG + +V +
Sbjct: 126 ----------------YMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHND 169
Query: 222 PDDLYKNGLQRSNFLPFIDVLKTY 245
+ R ++ Y
Sbjct: 170 AVLNNLDPSTRGIMGKYVIRFSPY 193
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 35.7 bits (81), Expect = 0.033
Identities = 21/157 (13%), Positives = 57/157 (36%), Gaps = 4/157 (2%)
Query: 13 KQYYEKLSNNEIQEDKHQEQIVKQL-DNVYVSIKNYAPQSKSMFSFFQDKVKQPKGLYI- 70
K+ + N+ +++ + + +K + F K++ K Y
Sbjct: 390 KKRDDFCKQNQEASSDRCSGLLQVIFSPLEEEVKAGIYSKPGGYRLFVQKLQDLKKKYYE 449
Query: 71 YGAVGGGKTMLMDIFYESCETKQKQRVHFNKFMLDVHAKIHE--VKKILARDKAKSYDPG 128
G ++ + +S E+ + ++ + + +I VK A+ AK
Sbjct: 450 EPRKGIQAEEILQTYLKSKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEM 509
Query: 129 VPNRLDVMKEEEEKEREREREREREREREREREREAK 165
+M+++E +E ++ + E +R + + +
Sbjct: 510 QRKNEQMMEQKERSYQEHLKQLTEKMENDRVQLLKEQ 546
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 33.9 bits (78), Expect = 0.052
Identities = 14/48 (29%), Positives = 24/48 (50%), Gaps = 2/48 (4%)
Query: 37 LDNVYVSIKNYAPQSKSMFSFFQ--DKVKQPKGLYIYGAVGGGKTMLM 82
L +V ++ + F + K+ KGLY++G+ G GKT L+
Sbjct: 24 LSDVDLNDDGRIKAIRFAERFVAEYEPGKKMKGLYLHGSFGVGKTYLL 71
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 34.1 bits (77), Expect = 0.10
Identities = 17/45 (37%), Positives = 20/45 (44%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKERERERERERERERERERERE 163
D P D EEK R+R+RER R ERER R+
Sbjct: 323 GDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRD 367
Score = 33.3 bits (75), Expect = 0.16
Identities = 15/149 (10%), Positives = 46/149 (30%), Gaps = 3/149 (2%)
Query: 23 EIQEDKHQEQIVKQLDNVYV---SIKNYAPQSKSMFSFFQDKVKQPKGLYIYGAVGGGKT 79
E + ++ K D + + + +++ + ++ G G
Sbjct: 150 EYEHERDMHSAYKHADGKKIDGRRVLVDVERGRTVKGWRPRRLGGGLGGTRRGGADVNIR 209
Query: 80 MLMDIFYESCETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEE 139
+ + ++ + + + + +R +
Sbjct: 210 HSGRDDTSRYDERPGPSPLPHRDRDRDRERERRERSRERDKERERRRSRSRDRRRRSRSR 269
Query: 140 EEKEREREREREREREREREREREAKSYD 168
+++ER R RER ++++R+R+R
Sbjct: 270 DKEERRRSRERSKDKDRDRKRRSSRSRER 298
Score = 32.5 bits (73), Expect = 0.29
Identities = 12/51 (23%), Positives = 21/51 (41%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYDP 169
+A P ++ + + E+ R+R+RER R ERE +
Sbjct: 319 PSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRD 369
Score = 32.1 bits (72), Expect = 0.32
Identities = 15/51 (29%), Positives = 20/51 (39%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYDP 169
D G P L + +E+ R+R+RER R ERER
Sbjct: 321 EAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRD 371
Score = 31.7 bits (71), Expect = 0.52
Identities = 11/50 (22%), Positives = 21/50 (42%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYD 168
R D + +ER ++++R+R+R R RER + +
Sbjct: 255 RRSRSRDRRRRSRSRDKEERRRSRERSKDKDRDRKRRSSRSRERARRERE 304
Score = 31.4 bits (70), Expect = 0.57
Identities = 13/31 (41%), Positives = 20/31 (64%)
Query: 138 EEEEKEREREREREREREREREREREAKSYD 168
E + ERER R+R+R+R+R+RE K +
Sbjct: 352 RERRRSHRSERERRRDRDRDRDRDREHKRGE 382
Score = 30.6 bits (68), Expect = 0.96
Identities = 9/50 (18%), Positives = 17/50 (34%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYD 168
++ + D D + E+ ER R+ R ++ E D
Sbjct: 360 SERERRRDRDRDRDRDREHKRGERGSERGRDEARGGGGGQDNGLEGLGND 409
Score = 30.6 bits (68), Expect = 1.0
Identities = 12/50 (24%), Positives = 20/50 (40%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYD 168
D + E+ R ERER R+R+R+R+R+ +
Sbjct: 331 PPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRDRDREHKR 380
Score = 30.6 bits (68), Expect = 1.2
Identities = 13/45 (28%), Positives = 22/45 (48%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKERERERERERERERERERERE 163
P P+ + + ++ER R ERER R+R+R+R+
Sbjct: 329 DGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRDRD 373
Score = 29.8 bits (66), Expect = 1.7
Identities = 12/33 (36%), Positives = 21/33 (63%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYDP 169
+ ERER R+R+R+R+R+RE +R + +
Sbjct: 355 RRSHRSERERRRDRDRDRDRDREHKRGERGSER 387
Score = 29.8 bits (66), Expect = 2.0
Identities = 10/30 (33%), Positives = 17/30 (56%)
Query: 139 EEEKEREREREREREREREREREREAKSYD 168
E K+++R+R+R R RER R + +
Sbjct: 279 ERSKDKDRDRKRRSSRSRERARRERERKEE 308
Score = 29.0 bits (64), Expect = 2.9
Identities = 9/32 (28%), Positives = 18/32 (56%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYD 168
+ E+ ++++R+R+R R RER R +
Sbjct: 275 RRSRERSKDKDRDRKRRSSRSRERARRERERK 306
Score = 29.0 bits (64), Expect = 3.1
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 138 EEEEKEREREREREREREREREREREAKSYD 168
E+ER R+R+R+R+R+RE +R
Sbjct: 358 HRSERERRRDRDRDRDRDREHKRGERGSERG 388
Score = 29.0 bits (64), Expect = 3.7
Identities = 7/33 (21%), Positives = 13/33 (39%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYDP 169
+E + ER ER R+ R ++ +
Sbjct: 376 REHKRGERGSERGRDEARGGGGGQDNGLEGLGN 408
Score = 28.7 bits (63), Expect = 4.7
Identities = 12/36 (33%), Positives = 19/36 (52%)
Query: 134 DVMKEEEEKEREREREREREREREREREREAKSYDP 169
+ E +ER + RE+ R++E E E K +DP
Sbjct: 56 PPTRAETREERMERKRREKIERRQQEVETELKMWDP 91
Score = 28.7 bits (63), Expect = 4.7
Identities = 7/51 (13%), Positives = 13/51 (25%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYDP 169
+P + + E+ R+R+RER
Sbjct: 311 GGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSE 361
Score = 28.7 bits (63), Expect = 5.0
Identities = 12/50 (24%), Positives = 23/50 (46%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYD 168
R +++S D R ++++++R+R R RER R +E
Sbjct: 263 RRRSRSRDKEERRRSRERSKDKDRDRKRRSSRSRERARRERERKEELRGG 312
Score = 28.3 bits (62), Expect = 5.8
Identities = 11/33 (33%), Positives = 20/33 (60%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYDP 169
+ E E+ R+R+R+R+R+RE +R + D
Sbjct: 359 RSERERRRDRDRDRDRDREHKRGERGSERGRDE 391
Score = 28.3 bits (62), Expect = 6.5
Identities = 7/32 (21%), Positives = 11/32 (34%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYD 168
+ ++ R RER R +E R
Sbjct: 285 DRDRKRRSSRSRERARRERERKEELRGGGGDM 316
Score = 27.9 bits (61), Expect = 7.9
Identities = 8/33 (24%), Positives = 11/33 (33%)
Query: 137 KEEEEKEREREREREREREREREREREAKSYDP 169
+ R RER R +E R +P
Sbjct: 287 DRKRRSSRSRERARRERERKEELRGGGGDMAEP 319
Score = 27.5 bits (60), Expect = 9.3
Identities = 10/45 (22%), Positives = 16/45 (35%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKERERERERERERERERERERE 163
R + D ++ E K ER ER R+ R ++
Sbjct: 356 RSHRSERERRRDRDRDRDRDREHKRGERGSERGRDEARGGGGGQD 400
Score = 27.5 bits (60), Expect = 9.4
Identities = 6/45 (13%), Positives = 12/45 (26%)
Query: 119 RDKAKSYDPGVPNRLDVMKEEEEKERERERERERERERERERERE 163
D ++ + E+ R+R+RE
Sbjct: 309 LRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRE 353
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 33.5 bits (76), Expect = 0.12
Identities = 29/202 (14%), Positives = 63/202 (31%), Gaps = 38/202 (18%)
Query: 50 QSKSMFSFFQDKVKQPKG--LYIYGAVGGGKTMLMDIFYESCETKQKQRVHFNKFMLDVH 107
Q + + S ++ K ++IYG G GKT ++ K + + ++
Sbjct: 28 QIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKH----VYIN 83
Query: 108 AKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSY 167
+ + + D +S D VP + E + + R+
Sbjct: 84 TRQIDTPYRVLADLLESLDVKVPFTGLSIAELYRRLVKAVRDYG---------------- 127
Query: 168 DPIPPVANDIISKTWLICFDEFQ--VTDIADAMI--LKRLFTELFQLGVVVVATSNRAPD 223
+I DE V D ++ L R+ +E+ + + + +N
Sbjct: 128 ------------SQVVIVLDEIDAFVKKYNDDILYKLSRINSEVNKSKISFIGITNDVKF 175
Query: 224 DLYKNGLQRSNFLPFIDVLKTY 245
+ +S+ + Y
Sbjct: 176 VDLLDPRVKSSLSEEEIIFPPY 197
>3bos_A Putative DNA replication factor; P-loop containing nucleoside
triphosphate hydrolases, struct genomics; HET: MSE CDP;
1.75A {Shewanella amazonensis} PDB: 3sc3_A
Length = 242
Score = 32.2 bits (74), Expect = 0.23
Identities = 6/15 (40%), Positives = 11/15 (73%)
Query: 68 LYIYGAVGGGKTMLM 82
+Y++G V G+T L+
Sbjct: 55 IYLWGPVKSGRTHLI 69
>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 384
Score = 32.4 bits (73), Expect = 0.27
Identities = 9/55 (16%), Positives = 16/55 (29%), Gaps = 2/55 (3%)
Query: 50 QSKSMFSFFQDKVKQPKG--LYIYGAVGGGKTMLMDIFYESCETKQKQRVHFNKF 102
+ + VK G G GKT + + E +K+ +
Sbjct: 28 ILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEIEEVKKEDEEYKDV 82
>1msw_D DNA-directed RNA polymerase, bacteriophage T7 RNA; T7RNAP
elongation complex, transcription/DNA/RNA complex; 2.10A
{Enterobacteria phage T7} SCOP: e.8.1.3 PDB: 1h38_A
1cez_A 1qln_A* 1s0v_A* 1s76_D* 1s77_D* 4rnp_A 3e2e_A*
3e3j_C* 1aro_P 2pi4_A* 2pi5_A
Length = 883
Score = 32.6 bits (72), Expect = 0.34
Identities = 18/147 (12%), Positives = 41/147 (27%)
Query: 14 QYYEKLSNNEIQEDKHQEQIVKQLDNVYVSIKNYAPQSKSMFSFFQDKVKQPKGLYIYGA 73
+ + + I V K + + + + + A
Sbjct: 245 ELAPEYAEAIATRAGALAGISPMFQPCVVPPKPWTGITGGGYWANGRRPLALVRTHSKKA 304
Query: 74 VGGGKTMLMDIFYESCETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRL 133
+ + + M Y++ Q NK +L V I + K D +P +
Sbjct: 305 LMRYEDVYMPEVYKAINIAQNTAWKINKKVLAVANVITKWKHCPVEDIPAIEREELPMKP 364
Query: 134 DVMKEEEEKERERERERERERERERER 160
+ + E +R +++ R
Sbjct: 365 EDIDMNPEALTAWKRAAAAVYRKDKAR 391
>2kjq_A DNAA-related protein; solution structure, NESG, structural
genomics, PSI-2, protei structure initiative; NMR
{Neisseria meningitidis serogroup B}
Length = 149
Score = 30.7 bits (70), Expect = 0.50
Identities = 6/15 (40%), Positives = 11/15 (73%)
Query: 68 LYIYGAVGGGKTMLM 82
+Y++G G GK+ L+
Sbjct: 39 IYVWGEEGAGKSHLL 53
>1v8k_A Kinesin-like protein KIF2C; microtubule destabilizer, structural P;
HET: ANP; 2.25A {Mus musculus} SCOP: c.37.1.9 PDB:
1v8j_A* 2gry_A*
Length = 410
Score = 31.5 bits (72), Expect = 0.51
Identities = 12/41 (29%), Positives = 22/41 (53%)
Query: 129 VPNRLDVMKEEEEKEREREREREREREREREREREAKSYDP 169
V + ++KE E+ + +RE +R + E +R +E S P
Sbjct: 2 VRRKSCIVKEMEKMKNKREEKRAQNSELRIKRAQEYDSSFP 42
>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo
sapiens}
Length = 322
Score = 30.8 bits (70), Expect = 0.77
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F K +G+ ++G G GK+ L
Sbjct: 37 LFTGKRTPWRGILLFGPPGTGKSYL 61
>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit
DNA-dependent RNA polymerase in mitochondria,
transferase; 2.50A {Homo sapiens}
Length = 1134
Score = 30.9 bits (68), Expect = 0.88
Identities = 10/87 (11%), Positives = 24/87 (27%)
Query: 82 MDIFYESCETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEE 141
+ ++ N +LD+ ++ + K +
Sbjct: 596 LHGALDALTQLGNCAWRVNGRVLDLVLQLFQAKGCPQLGVPAPPSEAPQPPEAHLPHSAA 655
Query: 142 KEREREREREREREREREREREAKSYD 168
R+ E RE ++ RE + +
Sbjct: 656 PARKAELRRELAHCQKVAREMHSLRAE 682
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 30.6 bits (69), Expect = 0.90
Identities = 13/47 (27%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 37 LDNVYVSIKNYAPQSKSMFSFFQD-KVKQPKGLYIYGAVGGGKTMLM 82
L ++ V+ + ++ F + + KGLY+YG +G GK+ L+
Sbjct: 123 LSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYGDMGIGKSYLL 169
>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase,
ATP-binding cassette, ATP-binding, endosome, MEM
nucleotide-binding; 2.70A {Saccharomyces cerevisiae}
PDB: 3eih_A* 2rko_A 3mhv_C
Length = 322
Score = 30.4 bits (69), Expect = 1.0
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F+ K G+ +YG G GK+ L
Sbjct: 43 LFKGNRKPTSGILLYGPPGTGKSYL 67
>3ehh_A Sensor kinase (YOCF protein); four-helix bundle, GHL ATPase domain,
transferase; HET: MSE ADP; 2.10A {Bacillus subtilis}
PDB: 3ehj_A* 3gie_A* 3gif_A* 3gig_A* 3ehf_A*
Length = 218
Score = 30.3 bits (69), Expect = 1.1
Identities = 10/27 (37%), Positives = 13/27 (48%)
Query: 137 KEEEEKERERERERERERERERERERE 163
KE E E + E ER E + ER+
Sbjct: 3 KERERLEEKLEDANERIAELVKLEERQ 29
Score = 29.9 bits (68), Expect = 1.1
Identities = 9/22 (40%), Positives = 12/22 (54%)
Query: 139 EEEKERERERERERERERERER 160
EE+ E ER E + ER+R
Sbjct: 9 EEKLEDANERIAELVKLEERQR 30
Score = 29.9 bits (68), Expect = 1.4
Identities = 9/25 (36%), Positives = 13/25 (52%)
Query: 138 EEEEKERERERERERERERERERER 162
E E++ E ER E + ER+R
Sbjct: 6 ERLEEKLEDANERIAELVKLEERQR 30
Score = 29.5 bits (67), Expect = 1.5
Identities = 8/28 (28%), Positives = 14/28 (50%)
Query: 131 NRLDVMKEEEEKERERERERERERERER 158
+ ++E+ E ER E + ER+R
Sbjct: 3 KERERLEEKLEDANERIAELVKLEERQR 30
>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic;
photosynthesis, rubisco activase, AAA+ protein; 2.95A
{Nicotiana tabacum} PDB: 3zw6_A
Length = 293
Score = 30.2 bits (68), Expect = 1.4
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 62 VKQPKGLYIYGAVGGGKTML 81
+K P L I+G G GK+
Sbjct: 33 IKVPLILGIWGGKGQGKSFQ 52
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 30.5 bits (68), Expect = 1.5
Identities = 10/77 (12%), Positives = 27/77 (35%)
Query: 90 ETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKERERERE 149
+ ++ D + ++ + + ++ RL+ + ++ +
Sbjct: 637 SVDVQSVEPVDQRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQ 696
Query: 150 REREREREREREREAKS 166
E E+ R+ E EA S
Sbjct: 697 SEAEKARKELLELEAMS 713
Score = 29.4 bits (65), Expect = 3.1
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 131 NRLDVMKEEEEKEREREREREREREREREREREA 164
RL+ K ++ E E+ R+ E E
Sbjct: 686 GRLERQKILDQSEAEKARKELLELEAMSMAVEST 719
Score = 28.6 bits (63), Expect = 4.8
Identities = 7/28 (25%), Positives = 12/28 (42%)
Query: 138 EEEEKEREREREREREREREREREREAK 165
E ++ + E E+ R+ E E A
Sbjct: 689 ERQKILDQSEAEKARKELLELEAMSMAV 716
>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding,
nucleotide-binding, HY; HET: ADP; 3.11A
{Methanocaldococcus jannaschii}
Length = 285
Score = 29.9 bits (68), Expect = 1.5
Identities = 10/20 (50%), Positives = 15/20 (75%)
Query: 62 VKQPKGLYIYGAVGGGKTML 81
++ PKG+ +YG G GKT+L
Sbjct: 48 IEPPKGILLYGPPGTGKTLL 67
>1l4a_E Synaphin A; snare, snare complex, membrane fusion,
neurotransmission, endocytosis/exocytosis complex; 2.95A
{Loligo pealei} SCOP: h.1.15.1
Length = 79
Score = 28.0 bits (61), Expect = 1.5
Identities = 13/51 (25%), Positives = 25/51 (49%), Gaps = 2/51 (3%)
Query: 115 KILARDKAKSYD--PGVPNRLDVMKEEEEKERERERERERERERERERERE 163
K + +K + + + +E EE+ +E+ R+ E ERE R+ R+
Sbjct: 2 KSASGEKEGNENAEEEAAAIEEARREAEERRKEKHRKMEEEREEMRQTIRD 52
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding;
HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 29.3 bits (66), Expect = 1.6
Identities = 12/47 (25%), Positives = 20/47 (42%), Gaps = 1/47 (2%)
Query: 37 LDNVYVSIKNYAPQSKSMFSFFQD-KVKQPKGLYIYGAVGGGKTMLM 82
LD + + ++ F + ++ KGL G+ G GKT L
Sbjct: 9 LDTYHPKNVSQNRALLTIRVFVHNFNPEEGKGLTFVGSPGVGKTHLA 55
>1l8q_A Chromosomal replication initiator protein DNAA; AAA+,
helix-turn-helix, nucleotide-binding, DNA binding, REP
initiation, DNA binding protein; HET: ADP; 2.70A
{Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB:
3r8f_A* 2hcb_A*
Length = 324
Score = 29.8 bits (68), Expect = 1.7
Identities = 9/15 (60%), Positives = 13/15 (86%)
Query: 68 LYIYGAVGGGKTMLM 82
++IYG+VG GKT L+
Sbjct: 40 IFIYGSVGTGKTHLL 54
>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain
III (ATPase domain), ATP-binding, cytoplasm, DNA
replication; HET: ADP; 3.00A {Thermotoga maritima} PDB:
2z4r_A*
Length = 440
Score = 29.9 bits (68), Expect = 1.7
Identities = 10/15 (66%), Positives = 12/15 (80%)
Query: 68 LYIYGAVGGGKTMLM 82
L+IYG VG GKT L+
Sbjct: 133 LFIYGGVGLGKTHLL 147
>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural
genomics consortium, ATP- hydrolase, magnesium,
metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo
sapiens}
Length = 357
Score = 29.7 bits (67), Expect = 1.9
Identities = 9/25 (36%), Positives = 14/25 (56%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F PKG+ ++G G GKT++
Sbjct: 109 IFTGLRGPPKGILLFGPPGTGKTLI 133
>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch
recognition, mismatched unpaired DNA binding protein-DNA
complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A*
2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*
Length = 934
Score = 30.0 bits (68), Expect = 2.0
Identities = 11/52 (21%), Positives = 18/52 (34%), Gaps = 3/52 (5%)
Query: 188 EFQVTDIADAMILKRLFTELFQLGV--VVVATSNRAPD-DLYKNGLQRSNFL 236
+ + + D L L Q+G V+ A D + +QR L
Sbjct: 172 KLGLCEFPDNDQFSNLEALLIQIGPKECVLPGGETAGDMGKLRQIIQRGGIL 223
>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding,
nucleotide-binding, hydrolase; 2.70A {Drosophila
melanogaster}
Length = 297
Score = 29.6 bits (67), Expect = 2.2
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F KGL ++G G GKT+L
Sbjct: 46 LFTGLRAPAKGLLLFGPPGNGKTLL 70
>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo
sapiens}
Length = 389
Score = 29.4 bits (66), Expect = 2.6
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F +GL ++G G GKTML
Sbjct: 140 LFTGLRAPARGLLLFGPPGNGKTML 164
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 28.7 bits (63), Expect = 2.8
Identities = 9/38 (23%), Positives = 18/38 (47%), Gaps = 1/38 (2%)
Query: 127 PGVPNRLDVMKEEEEKERE-RERERERERERERERERE 163
+ D + +E E R+ RE +R+R +E + +
Sbjct: 86 YAAIAQADRLTQEPESIRKWREEQRKRLQELDAASKVM 123
>1p6v_A SSRA-binding protein; SMPB, tmRNA, trans-translation, protein-RNA
complex, RNA binding protein/RNA complex; 3.20A {Aquifex
aeolicus} SCOP: b.111.1.1 PDB: 2ob7_B 1k8h_A 1zc8_K
Length = 156
Score = 28.3 bits (64), Expect = 3.2
Identities = 14/43 (32%), Positives = 20/43 (46%), Gaps = 12/43 (27%)
Query: 117 LARDKAKSYDPGVPNRLDVMKEEEEKERERERERERE-RERER 158
LA+ K K YD + E KE+ +RE ERE + +
Sbjct: 124 LAKGK-KLYD----------RRRELKEKAMKRELEREFKGKIH 155
>4f61_I Stathmin-like domain R4; alpha-tubulin, beta-tubulin, GTPase,
microtubule, RB3, stath tubulin, cell cycle; HET: GTP
GDP; 4.17A {Artificial gene}
Length = 240
Score = 28.4 bits (62), Expect = 3.9
Identities = 11/72 (15%), Positives = 29/72 (40%)
Query: 90 ETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKERERERE 149
+ ++R H + + + + K+ A+ + NR E+ +E+++
Sbjct: 169 KHLAEKREHEREVIQRAIEENNNWIKMAKEKLAQKMESNKENREAHFAAMLERLQEKDKH 228
Query: 150 RERERERERERE 161
E R+ + +E
Sbjct: 229 AEEVRKNKELKE 240
Score = 27.2 bits (59), Expect = 9.4
Identities = 14/76 (18%), Positives = 30/76 (39%), Gaps = 1/76 (1%)
Query: 90 ETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKERERERE 149
E ++ Q K + + EV + A ++ ++ +L E ++ RE
Sbjct: 56 ERRKYQEAELLKHLAEKREHEREVIQ-RAIEENNNWIKMAKEKLAQKMESNKENREAHFA 114
Query: 150 REREREREREREREAK 165
ER +E+++ E
Sbjct: 115 AMLERLQEKDKHAEEV 130
>1ypw_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48; HET: ADP ANP; 3.50A {Mus musculus} PDB: 1oz4_A*
1yq0_A* 1yqi_A* 1r7r_A* 3cf2_A* 3cf1_A* 3cf3_A*
Length = 806
Score = 29.0 bits (65), Expect = 4.3
Identities = 10/25 (40%), Positives = 14/25 (56%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTML 81
F + + KG+ YG G GKT+L
Sbjct: 503 FLKFGMTPSKGVLFYGPPGCGKTLL 527
>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA
ATPase, ATP-binding, coiled coil, membrane,
nucleotide-binding, phosphorylation; HET: ATP; 3.00A
{Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A
2jq9_A 2k3w_A 1yxr_A
Length = 444
Score = 28.8 bits (64), Expect = 4.6
Identities = 8/34 (23%), Positives = 13/34 (38%)
Query: 57 FFQDKVKQPKGLYIYGAVGGGKTMLMDIFYESCE 90
F K +G+ ++G G GK+ L
Sbjct: 159 LFTGKRTPWRGILLFGPPGTGKSYLAKAVATEAN 192
>2v1o_A Cytosolic acyl coenzyme A thioester hydrolase; acyl-COA
thioesterase 7, serine esterase, protein structure,
domain duplication, ACOT7, macrophage; HET: COA; 1.78A
{Mus musculus}
Length = 151
Score = 27.7 bits (62), Expect = 4.7
Identities = 6/23 (26%), Positives = 13/23 (56%)
Query: 138 EEEEKERERERERERERERERER 160
+E++E R+R ++ ER +
Sbjct: 129 RQEQEEEGRKRYEAQKLERMETK 151
Score = 26.9 bits (60), Expect = 7.3
Identities = 9/30 (30%), Positives = 18/30 (60%)
Query: 129 VPNRLDVMKEEEEKERERERERERERERER 158
VP + + +E+EE+ R+R ++ ER +
Sbjct: 122 VPPIVYLRQEQEEEGRKRYEAQKLERMETK 151
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 28.5 bits (64), Expect = 4.9
Identities = 19/124 (15%), Positives = 39/124 (31%), Gaps = 19/124 (15%)
Query: 62 VKQPKGLYIYGAVGGGKTMLMDIFYESCETKQKQRVHFNKFMLDVHAKIHEVKKILARDK 121
Q + + + G G GK+ML + M + ++ IL
Sbjct: 57 ANQKRHVLLIGEPGTGKSML------------------GQAMAE-LLPTETLEDILVFPN 97
Query: 122 AKSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYDPIPPVANDIISKT 181
+ + + + E+ RE+ + +E + ++ P V N +K
Sbjct: 98 PEDENMPRIKTVPACQGRRIVEKYREKAKSQESVKSSNMRLKSTVLVPKLLVDNCGRTKA 157
Query: 182 WLIC 185
I
Sbjct: 158 PFID 161
>3k29_A Putative uncharacterized protein; YSCO, type III secretion
apparatus, S genomics, csgid; HET: MSE; 2.00A {Chlamydia
trachomatis}
Length = 169
Score = 27.7 bits (60), Expect = 6.1
Identities = 14/76 (18%), Positives = 32/76 (42%)
Query: 90 ETKQKQRVHFNKFMLDVHAKIHEVKKILARDKAKSYDPGVPNRLDVMKEEEEKERERERE 149
+ K + H+ + + + ++ + A K K+Y V +L +E+ K++E
Sbjct: 44 SERDKVKNHYMQKIRQLREQLDDGTTSDAILKMKAYIKVVAIQLSEEEEKVNKQKENVLA 103
Query: 150 REREREREREREREAK 165
+E ER + +
Sbjct: 104 ASKELERAEVELTKRR 119
>4g6z_A Glutamate-tRNA ligase; aminoacyl-tRNA synthetase, AARS, class 1B
AARS, ATP-dependen charging, protein synthesis,
structural genomics; HET: GLU; 2.05A {Burkholderia
thailandensis}
Length = 490
Score = 28.3 bits (64), Expect = 6.4
Identities = 11/71 (15%), Positives = 26/71 (36%), Gaps = 7/71 (9%)
Query: 104 LDVHAKIHEVKKILARDKA-KSYDPGVPNRLDVMKEEEEKERERERERERERERERERER 162
+D + ++ + ++ + Y LD ++E + E+ R R +
Sbjct: 102 MDRYREV--LAQMQEKGLVYPCYMS--TEELDALRERQRAAGEKPRYDGTWRPEPGKVLP 157
Query: 163 EAKSYDPIPPV 173
E + + PV
Sbjct: 158 EPPA--GVAPV 166
>3jro_A Fusion protein of protein transport protein SEC13 and nucleoporin
NUP145; protein complex, cytoplasmic vesicle,
endoplasmic reticulum, ER-golgi transport, membrane,
mRNA transport; 4.00A {Saccharomyces cerevisiae}
Length = 753
Score = 28.0 bits (62), Expect = 8.0
Identities = 13/130 (10%), Positives = 33/130 (25%), Gaps = 27/130 (20%)
Query: 224 DLYKNGLQRSNFLPFIDVLKTYCDVASLNSNIDYRSLKANAEESSTKTYFVK-------- 275
+ + P + + Y + + NA + Y ++
Sbjct: 603 QSHLDKFSLPYDDPIGVIFQLYAANENTEKLYKEVRQRTNALDVQFCWYLIQTLRFNGTR 662
Query: 276 ------------NFANEKKLHGIFK----LLCSQENDIVRPRVIT-IMGRNVTFNKTCGQ 318
FA + + + + C +D I ++ R +T +
Sbjct: 663 VFSKETSDEATFAFAAQLEFAQLHGHSLFVSCFLNDDKAAEDTIKRLVMREITLLRASTN 722
Query: 319 ILEATFDELC 328
+ + L
Sbjct: 723 --DHILNRLK 730
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 27.5 bits (62), Expect = 8.8
Identities = 8/20 (40%), Positives = 12/20 (60%)
Query: 62 VKQPKGLYIYGAVGGGKTML 81
+ P G+ + G G GKT+L
Sbjct: 41 LVTPAGVLLAGPPGCGKTLL 60
>1v9d_A Diaphanous protein homolog 1; helix bundle, protein binding; 2.60A
{Mus musculus} SCOP: a.207.1.1
Length = 340
Score = 27.4 bits (61), Expect = 9.0
Identities = 7/26 (26%), Positives = 14/26 (53%)
Query: 136 MKEEEEKERERERERERERERERERE 161
+E EEK R + +E+ + E++
Sbjct: 315 RRETEEKMRRAKLAKEKAEKERLEKQ 340
>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 361
Score = 27.5 bits (60), Expect = 9.3
Identities = 7/47 (14%), Positives = 19/47 (40%), Gaps = 1/47 (2%)
Query: 123 KSYDPGVPNRLDVMKEEEEKEREREREREREREREREREREAKSYDP 169
+ + N+ ++ E+E E R +E + + + + + D
Sbjct: 309 RKVENEDMNKDQILLEKEA-ELRRMQEMIARMQAQMQMQMQGGDGDG 354
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
0.318 0.134 0.381
Gapped
Lambda K H
0.267 0.0782 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 6,555,711
Number of extensions: 402482
Number of successful extensions: 1804
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1621
Number of HSP's successfully gapped: 163
Length of query: 438
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 342
Effective length of database: 4,021,377
Effective search space: 1375310934
Effective search space used: 1375310934
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 (21.7 bits)
S2: 59 (26.4 bits)