RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12659
(1051 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 = 83.4 bits (205), Expect = 2e-16
Identities = 97/666 (14%), Positives = 189/666 (28%), Gaps = 195/666 (29%)
Query: 30 DHDMTQI--HYQNITSLQKAAFAKFPDLRSFSLANVASVDTRETLTKHFEPLTPLCVLKK 87
D + + Y++I S+ + AF D + D ++ +L K
Sbjct: 8 DFETGEHQYQYKDILSVFEDAFVDNFDCK----------DVQDMPKS---------ILSK 48
Query: 88 RTEEEENEDEDVEMENKDANVLTTTPPRQAIIIGFLLIQ---VLKKRTEEEENEDEDVEM 144
E D + ++ + L + LL + +++K EE + M
Sbjct: 49 -----EEIDHIIMSKDAVSGTL--------RLFWTLLSKQEEMVQKFVEEVLRINYKFLM 95
Query: 145 ENKDGKPIITVEPHVIPSRGPYLFNEPRKNTI----PFTP------TQIEAIRAG---MQ 191
I E PS ++ E R F +R ++
Sbjct: 96 SP------IKTEQR-QPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELR 148
Query: 192 PGLTLVV-GPPGTGKTDVAVQIISN--LYHNFPHQRTLI----VTHSNQALNQLFEKIIS 244
P +++ G G+GKT VA+ + + + + I + + N + E +
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFK---IFWLNLKNCNSP-ETVLEMLQK 204
Query: 245 LDVDERHLLRLGHGEEALETEKDFSRYGRVNYVLAK-RLDLLQEVERLQKSLDVSGDVAY 303
L L ++ + + D S ++ + L L + + + L V +V
Sbjct: 205 L------LYQI---DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV-Q 254
Query: 304 TCETAGHFFLYQVLARWEKF------LATVRPSDGKTVPVKTIKTEFPFHGFFENAPKPL 357
+ W F L T R K V + H ++ L
Sbjct: 255 NAKA------------WNAFNLSCKILLTTR--F-KQV-TDFLSAATTTHISLDHHSMTL 298
Query: 358 FKEKSYETDMEIAEGCFRYIEKMFTQL-EEFRAF---------ELLRSGLDRSKYLLV-- 405
++ + +Y++ L E E +R GL
Sbjct: 299 TPDEV----KSL---LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVN 351
Query: 406 --KEAKIIAMTCTHAALKRKELVDMGFSFSISP------------IW------VSFNTVS 445
K II + L+ E M S+ P IW V+
Sbjct: 352 CDKLTTIIESSL--NVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409
Query: 446 DLC--SQISRHEKRSS------QLEALNSMPLYPT--QEIIWNENIVPTEYFSGEGCLAL 495
L S + + K S+ LE + + I+ ++ + F + +
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIV--DHYNIPKTFDSDDLIPP 467
Query: 496 PKLN--LQFLTLHDYLLRN---FNLFR------------LESTCRVNYVLAKRLDLLQEV 538
+ H + + LFR + L+ LQ++
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 539 ERLQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATVRQRKQDRRKPAVSRTNIIREK 598
+ + Y C+ + +++ FL + N+I K
Sbjct: 528 KFYKP---------YICDNDPKY--ERLVNAILDFLPKI-------------EENLICSK 563
Query: 599 QPSRVR 604
+R
Sbjct: 564 YTDLLR 569
Score = 67.2 bits (163), Expect = 2e-11
Identities = 59/433 (13%), Positives = 129/433 (29%), Gaps = 126/433 (29%)
Query: 683 RPVLPGDTRTFRVMLDCNQYKEDLDNVAQGNEDVYETFNVLMRRKPKENNFKAVLETIRD 742
+ +L F DC ++ ++ E++ K + + T+
Sbjct: 19 KDILSVFEDAFVDNFDCKDVQDMPKSILS-KEEIDHIIMS----KDAVSGTLRLFWTLLS 73
Query: 743 LMNTECVVPDWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTFLNMDHLRSSFPQAEIRV 802
E +V ++ +++ +Y + + I T + + + + R+
Sbjct: 74 --KQEEMVQKFVEEVL-------RINYKFLMSPIKT-EQRQPSMMTR----MYIEQRDRL 119
Query: 803 KTDNPTKLVPPFKLT-FHEIEAIRAG---MQPGLTLVV-GPPGTGKTDVAVQIISN--LY 855
DN + + ++ +R ++P +++ G G+GKT VA+ + + +
Sbjct: 120 YNDNQ--VFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQ 177
Query: 856 HNFPHQ------------RTLIVTHSNQALNQLFEKI-------------ISLDVDE--- 887
+ T++ + L +L +I I L +
Sbjct: 178 CKMDFKIFWLNLKNCNSPETVL-----EMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232
Query: 888 ---RHLLHKKYRITPRYLLLAIKNDVELSQLL-------------SDVTIA---QGGVMP 928
R L K Y LL + +V+ ++ +
Sbjct: 233 ELRRLLKSKPY---ENCLL--VLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTT 287
Query: 929 NIQSMKFDKTL-----KTLLSPW--KSEDGSPFFGGWARMAQPIVNFAVVEVAKPNIEEA 981
+I TL K+LL + P R + +A+ +I +
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP------REVLTTNPRRLSIIAE-SIRDG 340
Query: 982 LETEKDFSRYGRVNYVLAKRLDLLQEVERLQKSLDVSGDVAYTCETAGHF-----FL--- 1033
L T + + VN ++L ++ S +V E F F
Sbjct: 341 LAT---WDNWKHVNC------------DKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSA 385
Query: 1034 ---YQVLAR-WEK 1042
+L+ W
Sbjct: 386 HIPTILLSLIWFD 398
Score = 63.7 bits (154), Expect = 2e-10
Identities = 99/616 (16%), Positives = 177/616 (28%), Gaps = 182/616 (29%)
Query: 505 LHDYL---LRNFNLFRLESTCRVNYVLAKRL--DLLQEVERLQKSLDVSGDVAYTCETAG 559
L + + NF+ ++ + +L+K ++ + + +L + + E
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKS--ILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMV 79
Query: 560 HFFLYQVLARWEKFLATVRQRKQDRRKPAVSRTNIIREKQPSRVRADVIVNLNVKR---- 615
F+ +VL KFL + K ++R+P++ I ++ V NV R
Sbjct: 80 QKFVEEVLRINYKFLMS--PIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137
Query: 616 -EIKGEWESLRKH------------------DVC--FLITLKPP-----LPIGTKISYKG 649
+++ LR DVC + + K L + S +
Sbjct: 138 LKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPET 197
Query: 650 PFLEQTGLTYVRGCEIEGMLDVNGRIIEDGPEPRPVLPGDTRT-FRVMLDCNQYKEDL-- 706
L Y +D N D + + R +L Y+ L
Sbjct: 198 VLEMLQKLLYQ--------IDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV 249
Query: 707 -DNVAQGNEDVYETFNVLMRRKPKENNFKAVLETIRDLMNTECVVPDWLHDIILGYGDPG 765
NV N + FN+ + +L T R T+ + I L +
Sbjct: 250 LLNVQ--NAKAWNAFNLSCK----------ILLTTRFKQVTDFLSAATTTHISLDHHSMT 297
Query: 766 A---------AHYTEM-----PNE-----------IATM--DFNDTFLNMDHLRSSFPQA 798
Y + P E IA D T+ N H+
Sbjct: 298 LTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTT 357
Query: 799 EIRVKTDNPTKLVPP-FKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHN 857
I + L P ++ F L V PP + ++S ++ +
Sbjct: 358 IIESSLNV---LEPAEYRKMFDR-------------LSVFPPSA---HIPTILLSLIWFD 398
Query: 858 FPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIK--NDVEL-SQ 914
++V +N+L + SL E+ I YL L +K N+ L
Sbjct: 399 VIKSDVMVV------VNKLHKY--SLV--EKQPKESTISIPSIYLELKVKLENEYALHRS 448
Query: 915 LLSDVTIAQGGVMPNIQSMKFDKTLKTLLSPWKSEDG--SPFFG---GWARMAQPI---- 965
++ I + FD L+ P+ D G + +
Sbjct: 449 IVDHYNIPK----------TFDS--DDLIPPY--LDQYFYSHIGHHLKNIEHPERMTLFR 494
Query: 966 ---VNFAVVEVAK--------------------------------PNIEEALETEKDFSR 990
++F +E K P E + DF
Sbjct: 495 MVFLDFRFLE-QKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLP 553
Query: 991 YGRVNYVLAKRLDLLQ 1006
N + +K DLL+
Sbjct: 554 KIEENLICSKYTDLLR 569
Score = 37.5 bits (86), Expect = 0.025
Identities = 26/181 (14%), Positives = 59/181 (32%), Gaps = 40/181 (22%)
Query: 855 YHNFPHQRTLI--VTHSNQALNQLFEKIISLDVDERHLL-HKKYRITPRYL--LLAIKND 909
+H+ H + + + +FE + D + + K ++ + ++ K+
Sbjct: 1 HHHHHHMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDA 60
Query: 910 VELSQLLSDVTIAQGGVMPNIQSMKFDKTLKT----LLSPWKSEDGSPFFGGWARMAQPI 965
V + L +++ + ++ L+ L+SP K+E P
Sbjct: 61 VSGTLRLFWTLLSKQ---EEMVQKFVEEVLRINYKFLMSPIKTEQRQP------------ 105
Query: 966 VNFAVVEVAKPNIEEALETEKDFSRYGRVNYVLAK----RLDLLQEVERLQKSLDVSGDV 1021
+ ++D R N V AK RL ++ + L + +V
Sbjct: 106 ----------SMMTRMYIEQRD--RLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNV 153
Query: 1022 A 1022
Sbjct: 154 L 154
>2f8n_K Histone H2A type 1; nucleosome, NCP, macroh2A, histone variant,
chromatin, X- RAY structure, crystallography, structural
protein/DNA complex; 2.90A {Mus musculus} SCOP: a.22.1.1
Length = 149
Score = 70.7 bits (172), Expect = 2e-14
Identities = 33/72 (45%), Positives = 45/72 (62%), Gaps = 1/72 (1%)
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGV 926
+ L L +I+ L + +KK RI PR+L LAI+ND EL++LL VTIAQGGV
Sbjct: 69 VYLAAVLEYLTAEILELAGNAARD-NKKTRIIPRHLQLAIRNDEELNKLLGRVTIAQGGV 127
Query: 927 MPNIQSMKFDKT 938
+PNIQ++ K
Sbjct: 128 LPNIQAVLLPKK 139
>1tzy_A Histone H2A-IV; histone-fold, tetramer-dimer-dimer, DNA binding
protein; 1.90A {Gallus gallus} SCOP: a.22.1.1 PDB:
1eqz_A 1hq3_A 2aro_A 2hio_A 3c9k_A 3azg_C 3a6n_C 3an2_C
3av1_C 3av2_C 3ayw_C 3aze_C 3azf_C 3afa_C 3azh_C 3azi_C
3azj_C 3azk_C 3azl_C 3azm_C ...
Length = 129
Score = 66.4 bits (161), Expect = 4e-13
Identities = 33/83 (39%), Positives = 46/83 (55%), Gaps = 1/83 (1%)
Query: 856 HNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQL 915
+ + L L +I+ L + +KK RI PR+L LAI+ND EL++L
Sbjct: 39 NYAERVGAGAPVYLAAVLEYLTAEILELAGNAARD-NKKTRIIPRHLQLAIRNDEELNKL 97
Query: 916 LSDVTIAQGGVMPNIQSMKFDKT 938
L VTIAQGGV+PNIQ++ K
Sbjct: 98 LGKVTIAQGGVLPNIQAVLLPKK 120
>2f8n_G Core histone macro-H2A.1; nucleosome, NCP, macroh2A, histone
variant, chromatin, X- RAY structure, crystallography,
structural protein/DNA complex; 2.90A {Homo sapiens}
SCOP: a.22.1.1 PDB: 1u35_C
Length = 120
Score = 65.7 bits (159), Expect = 6e-13
Identities = 32/71 (45%), Positives = 43/71 (60%), Gaps = 1/71 (1%)
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGV 926
+ L L +I+ L V+ +KK R+TPR++LLA+ ND EL+QLL VTIA GGV
Sbjct: 47 VYMAAVLEYLTAEILELAVNAARD-NKKGRVTPRHILLAVANDEELNQLLKGVTIASGGV 105
Query: 927 MPNIQSMKFDK 937
+PNI K
Sbjct: 106 LPNIHPELLAK 116
>1id3_C Histone H2A.1; nucleosome core particle, chromatin, protein/DNA
interaction, nucleoprotein, supercoiled DNA; 3.10A
{Saccharomyces cerevisiae} SCOP: a.22.1.1
Length = 131
Score = 65.0 bits (157), Expect = 2e-12
Identities = 32/72 (44%), Positives = 43/72 (59%), Gaps = 1/72 (1%)
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGV 926
+ L L +I+ L + +KK RI PR+L LAI+ND EL++LL +VTIAQGGV
Sbjct: 50 VYLTAVLEYLAAEILELAGNAARD-NKKTRIIPRHLQLAIRNDDELNKLLGNVTIAQGGV 108
Query: 927 MPNIQSMKFDKT 938
+PNI K
Sbjct: 109 LPNIHQNLLPKK 120
>2nqb_C Histone H2A; nucleosome, NCP, chromatin, structural protein/DNA
complex; 2.30A {Drosophila melanogaster} PDB: 2pyo_C*
Length = 123
Score = 60.7 bits (146), Expect = 4e-11
Identities = 31/67 (46%), Positives = 45/67 (67%), Gaps = 1/67 (1%)
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGV 926
+ + L +++ L + +KK RI PR+L LAI+ND EL++LLS VTIAQGGV
Sbjct: 48 VYLAAVMEYLAAEVLELAGNAARD-NKKTRIIPRHLQLAIRNDEELNKLLSGVTIAQGGV 106
Query: 927 MPNIQSM 933
+PNIQ++
Sbjct: 107 LPNIQAV 113
>2wjy_A Regulator of nonsense transcripts 1; nonsense mediated decay,
zinc-finger, ATP-binding, metal-BIN UPF2, UPF1,
helicase, hydrolase; 2.50A {Homo sapiens} PDB: 2wjv_A
2iyk_A
Length = 800
Score = 63.0 bits (153), Expect = 4e-10
Identities = 41/153 (26%), Positives = 74/153 (48%), Gaps = 11/153 (7%)
Query: 155 VEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIIS 214
VE +I + P F +Q+ A++ +Q L+L+ GPPGTGKT + I+
Sbjct: 336 VEDVIIKCQLPKRFTAQ--GLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVY 393
Query: 215 NLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLGHGE-EALETEKDFSRYGR 273
+L L+ SN A++QL EKI + ++RL EA+++ F
Sbjct: 394 HLARQGN-GPVLVCAPSNIAVDQLTEKIHQTGLK---VVRLCAKSREAIDSPVSFLAL-- 447
Query: 274 VNYVLAKRLDLLQEVERLQKSLDVSGDVAYTCE 306
+ + +D + E+++LQ+ D +G+++ E
Sbjct: 448 --HNQIRNMDSMPELQKLQQLKDETGELSSADE 478
Score = 51.1 bits (122), Expect = 2e-06
Identities = 26/93 (27%), Positives = 44/93 (47%), Gaps = 3/93 (3%)
Query: 796 PQAEIRVKTDNPTKLVPPF--KLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISN 853
++ +K P + L ++ A++ +Q L+L+ GPPGTGKT + I+ +
Sbjct: 335 EVEDVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYH 394
Query: 854 LYHNFPHQRTLIVTHSNQALNQLFEKIISLDVD 886
L L+ SN A++QL EKI +
Sbjct: 395 LARQGN-GPVLVCAPSNIAVDQLTEKIHQTGLK 426
>2xzl_A ATP-dependent helicase NAM7; hydrolase-RNA complex, NMD, RNA
degradation, allosteric REGU; HET: ADP 1PE; 2.40A
{Saccharomyces cerevisiae}
Length = 802
Score = 62.6 bits (152), Expect = 5e-10
Identities = 39/180 (21%), Positives = 66/180 (36%), Gaps = 30/180 (16%)
Query: 160 IPSRGPYLFNEPRKNTIPFTPT----QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISN 215
+ P++ +IP Q A+ +Q L+L+ GPPGTGKT + I+ +
Sbjct: 339 QVVDISFDVPLPKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYH 398
Query: 216 LYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLGHG--EEALETEKDFSRYGR 273
L R L+ SN A++ L K+ L + ++RL E+ + + + +
Sbjct: 399 LSKIHKD-RILVCAPSNVAVDHLAAKLRDLGL---KVVRLTAKSREDVESSVSNLALHNL 454
Query: 274 VNYVLAKRLDLLQEVERLQKSLDVSGDVAY--------------------TCETAGHFFL 313
V L L +++ L S + TC AG L
Sbjct: 455 VGRGAKGELKNLLKLKDEVGELSASDTKRFVKLVRKTEAEILNKADVVCCTCVGAGDKRL 514
Score = 53.8 bits (129), Expect = 3e-07
Identities = 25/91 (27%), Positives = 40/91 (43%), Gaps = 3/91 (3%)
Query: 798 AEIRVKTDNPTKLVPPFKLTFHE--IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLY 855
+I P + P + A+ +Q L+L+ GPPGTGKT + I+ +L
Sbjct: 341 VDISFDVPLPKEFSIPNFAQLNSSQSNAVSHVLQRPLSLIQGPPGTGKTVTSATIVYHLS 400
Query: 856 HNFPHQRTLIVTHSNQALNQLFEKIISLDVD 886
R L+ SN A++ L K+ L +
Sbjct: 401 KIHKD-RILVCAPSNVAVDHLAAKLRDLGLK 430
>1f66_C Histone H2A.Z; nucleosome, chromatin, histone variant, protein DNA
interaction, nucleoprotein, supercoiled DNA, complex
(nucleosome core/DNA); 2.60A {Homo sapiens} SCOP:
a.22.1.1
Length = 128
Score = 56.5 bits (135), Expect = 1e-09
Identities = 24/67 (35%), Positives = 32/67 (47%), Gaps = 1/67 (1%)
Query: 872 ALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNIQ 931
A+ + + K RITPR+L LAI+ D EL L+ TIA GGV+P+I
Sbjct: 57 AILEYLTAEVLELAGNASKDLKVKRITPRHLQLAIRGDEELDSLIK-ATIAGGGVIPHIH 115
Query: 932 SMKFDKT 938
K
Sbjct: 116 KSLIGKK 122
>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 = 61.2 bits (148), Expect = 2e-09
Identities = 94/601 (15%), Positives = 175/601 (29%), Gaps = 231/601 (38%)
Query: 291 LQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATV-RPSDGKTV---PVKTIKTEFPF 346
L+ L V FF+ L E+F + P++G P + F
Sbjct: 16 LEHVLLVP---------TASFFIASQL--QEQFNKILPEPTEGFAADDEPTTPAELVGKF 64
Query: 347 HGFFENAPKPLFKEKSYETDMEIAEGCFRYIEKMFTQLEEFRAF--ELL---RSGLDRSK 401
G+ + +P K ++ ++ C E + + + A +LL + L ++K
Sbjct: 65 LGYVSSLVEPS-KVGQFD---QVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTK 120
Query: 402 YLLVK--EAKIIA----MTCTHAALKR-----------------------KELVDMGFSF 432
L+ A+I+A +++AL R +EL D+ +
Sbjct: 121 ELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDL---Y 177
Query: 433 SISPIWVS--FNTVSDLCSQISRHEKRSSQLEALNSMPLYPT--QEIIW--NENIVPTEY 486
+ V ++ S++ R + ++ + W N + P +
Sbjct: 178 QTYHVLVGDLIKFSAETLSELIRTTLDAE--------KVFTQGLNILEWLENPSNTPDKD 229
Query: 487 FSGEGCLALPKLNL-QF----LTLHDYLLRNFNLF-RLE--STCRVNYVLA--------- 529
+ ++ P + + Q +T L L+ + V A
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 530 --------KRLDLL-------QEV--------ERLQKSLD-----------VSGDVAYTC 555
K + +L E L+ SL+ +S T
Sbjct: 290 ESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN---LTQ 346
Query: 556 ETAGHFFLYQVLARWEKFLATVRQRKQDRRKPAVSRTNIIREKQPSRVRADVI------- 608
E QV + ++ ++ +S N + V+
Sbjct: 347 E--------QV----QDYVNKTNSHLPAGKQVEISLVN-------GA-KNLVVSGPPQSL 386
Query: 609 VNLNVK-REIKGEWE--------SLRK--HDVCFLITLKPPLPIGTKISYKGPF---LEQ 654
LN+ R+ K S RK F LP+ + PF L
Sbjct: 387 YGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRF-------LPVAS------PFHSHL-- 431
Query: 655 TGLTYVRGCEIEGMLDVNGRIIEDGPEPRPVLPGDTRTFRVMLDCNQYKEDLDNVAQGNE 714
++ + I +D L + +F +D+ +
Sbjct: 432 -------------LVPASDLINKD-------LVKNNVSFNA--------KDI-QIP---- 458
Query: 715 DVYETFNVLMRRKPKENNFKAVLETIRDLMNTECVVPDW--------LHDIILGYGDPGA 766
VY+TF+ R + + E I D + V W H IL +G PG
Sbjct: 459 -VYDTFDGSDLRVLSGS----ISERIVDCIIRLPV--KWETTTQFKATH--ILDFG-PGG 508
Query: 767 A 767
A
Sbjct: 509 A 509
Score = 60.8 bits (147), Expect = 2e-09
Identities = 121/708 (17%), Positives = 203/708 (28%), Gaps = 267/708 (37%)
Query: 55 LRSFSLANVASVDTR-----------ETLTKHFEPLTPLCVLKKRTEEEENEDEDV-EME 102
R +L++ S++ L + F + P + TE +DE E
Sbjct: 6 TRPLTLSH-GSLEHVLLVPTASFFIASQLQEQFNKILP-----EPTEGFAADDEPTTPAE 59
Query: 103 NKDANVLTTTPPRQAIIIGFL-----------LIQVLKKRTEEEENE---DEDV-----E 143
L +G++ QVL E EN D+ +
Sbjct: 60 ------LV------GKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAK 107
Query: 144 MENKDGKPIITVEPHVIPSRGPYL---FNEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGP 200
+ ++ ++ + +I + Y+ R A+ G L + G
Sbjct: 108 LLQENDTTLVKTK-ELIKN---YITARIMAKRPFDKKSNSALFRAVGEG-NAQLVAIFG- 161
Query: 201 PGTGKTDVAVQIISNLYHNF-PHQRTLIVTHSNQALNQL------FEKIISLDVDERHLL 253
G G TD + + +LY + LI + + L++L EK+ + ++ L
Sbjct: 162 -GQGNTDDYFEELRDLYQTYHVLVGDLIKFSA-ETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 254 RLGHGEEALETEKDFSRYGRV-----------NY-VLAKRLDL--LQEVERLQKSLDVSG 299
+ +KD+ + +Y V AK L + L+ + S
Sbjct: 220 E----NPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQ 275
Query: 300 DVAYTCETAGHFFLYQVLAR---WEKFLATVRPSDGKTVPVKTIKTEFPFHGF--FENAP 354
+ TA +A WE F +VR K I F F G +E P
Sbjct: 276 GLV----TA------VAIAETDSWESFFVSVR---------KAITVLF-FIGVRCYEAYP 315
Query: 355 KPLFKEKSYETDMEIAEGCFRYIEKMFTQLEEFRAFELLRSGLDRSKYLLVKEAKIIAMT 414
E +E EG M L S L + + + T
Sbjct: 316 NTSLPPSILEDSLENNEGVPSP---M-----------LSISNLTQEQVQ-----DYVNKT 356
Query: 415 CTHAALKRKELVDMGFSFSISPIWVS-FNT-----VS-------DLCSQISRHEKRSSQL 461
+H ++ + +S N VS L + R K S L
Sbjct: 357 NSHLPAGKQ-------------VEISLVNGAKNLVVSGPPQSLYGLNLTL-RKAKAPSGL 402
Query: 462 EALNSMPLYPTQEIIWNENIVPTEYFSGEGCLALPKLNLQFLTL----HDYLLRNFNLFR 517
+ Q + +P FS K + +FL + H +LL
Sbjct: 403 D----------Q------SRIP---FSERK----LKFSNRFLPVASPFHSHLLV------ 433
Query: 518 LESTCRVNYVLAKRLDLLQEVERLQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATV 577
++ +N L K V K + + V Y
Sbjct: 434 -PASDLINKDLVK-----NNVSFNAKDIQIP--V-YDTFDG------------------- 465
Query: 578 RQRKQDRRKPAVSRTNIIREKQPSRVRADVIVNLNVKREIKGEWESLRK----HDVCFLI 633
D R +I R+ D I+ L V +WE+ + H + F
Sbjct: 466 ----SDLRV---LSGSISE-----RI-VDCIIRLPV------KWETTTQFKATHILDF-- 504
Query: 634 TLKPPLPIGTKISYKGPFLEQTGLTYV-------RGCEI--EGMLDVN 672
GP +GL + G + G LD+N
Sbjct: 505 ---------------GP-GGASGLGVLTHRNKDGTGVRVIVAGTLDIN 536
Score = 53.1 bits (127), Expect = 4e-07
Identities = 88/532 (16%), Positives = 159/532 (29%), Gaps = 201/532 (37%)
Query: 541 LQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATVRQR-----KQDRRKPA-----VS 590
L+ L V FF+ L E+F + + D +P V
Sbjct: 16 LEHVLLVP---------TASFFIASQL--QEQFNKILPEPTEGFAADD--EPTTPAELVG 62
Query: 591 R--TNIIREKQPSRV-RADVIVNLNVKREIKGEWES--LRKHDV-CFLITLKPPLPIGTK 644
+ + +PS+V + D ++NL + E+E+ L +D+ L T
Sbjct: 63 KFLGYVSSLVEPSKVGQFDQVLNLCLT-----EFENCYLEGNDIHALAAKLLQEND--TT 115
Query: 645 ISYKGPFLEQTGLTYVRGCEIEGMLDVNGRIIEDGPEP---RPVLPGDTRTFRVMLDCNQ 701
+ ++ Y+ + R + R V G+ +
Sbjct: 116 LVKTKELIK----NYITARI------MAKRPFDKKSNSALFRAVGEGNAQLV-------- 157
Query: 702 YKEDLDNVA----QGNE--------DVYETFNVLMRRKPKENNFKAVLETIRDLMNTECV 749
A QGN D+Y+T++VL+ + + + + E IR ++ E V
Sbjct: 158 --------AIFGGQGNTDDYFEELRDLYQTYHVLVGD-LIKFSAETLSELIRTTLDAEKV 208
Query: 750 VP------DWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTFLNMDHLRS---SFP---- 796
+WL +P P++ D+L S S P
Sbjct: 209 FTQGLNILEWLE-------NPSNT-----PDK-------------DYLLSIPISCPLIGV 243
Query: 797 -Q-----AEIRVKTDNPTKLVPPFK-LT--------------------FHEI--EAIRA- 826
Q ++ P +L K T F +AI
Sbjct: 244 IQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVL 303
Query: 827 ---GMQ-----PGLTL---VV--------GPPG-----TGKTDVAVQ-IISNLYHNFPHQ 861
G++ P +L ++ G P + T VQ ++ + P
Sbjct: 304 FFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAG 363
Query: 862 -----------RTLIVT---HSNQALNQLFEKI-ISLDVDERHLLH--KKYRITPRYLLL 904
+ L+V+ S LN K +D+ + +K + + R+L
Sbjct: 364 KQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFL-- 421
Query: 905 AIKNDVEL---SQLLSDVTIAQGGVMPNIQSMKFDKTLKTLLSP-WKSEDGS 952
V S LL A + ++ K + P + + DGS
Sbjct: 422 ----PVASPFHSHLLVP---ASDLINKDLVKNNVSFNAKDIQIPVYDTFDGS 466
Score = 44.3 bits (104), Expect = 2e-04
Identities = 59/320 (18%), Positives = 92/320 (28%), Gaps = 122/320 (38%)
Query: 779 MDF-------NDTFLNMD-HLRSSFPQAEIRVKTDNPTKLVPPFKLTFH----EIEAIRA 826
MD D + D H + ++ + + + +NP LT H + + IR
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVN------LTIHFGGEKGKRIRE 1686
Query: 827 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQ---------LF 877
+ G KT+ + I+ H + L+ L
Sbjct: 1687 NYSA-MIFETIVDGKLKTEKIFKEIN------EHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 878 EKIISLDVDERHLLHKKYRITPRYLLLAIKNDV-------ELSQLLSDVTIAQGGVMPNI 930
EK L K + P + E + L + VM
Sbjct: 1740 EKAAF-----EDL--KSKGLIP-------ADATFAGHSLGEYAAL-----ASLADVMS-- 1778
Query: 931 QSMKFDKTLKTL---------LSPWKSEDGSPFFGGWARMAQPIVNFAVV--EVAKPNIE 979
+ ++ + P + E G +G M A+ VA +
Sbjct: 1779 ----IESLVEVVFYRGMTMQVAVP-RDELGRSNYG----MI------AINPGRVAASFSQ 1823
Query: 980 EALET--EKDFSRYGR----VNY-------VLA---KRLDLLQEV-----------ERLQ 1012
EAL+ E+ R G VNY V A + LD + V LQ
Sbjct: 1824 EALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQ 1883
Query: 1013 KSLDVSGDVAYTCETAGHFF 1032
KSL + E GH F
Sbjct: 1884 KSLSLE-------EVEGHLF 1896
Score = 43.5 bits (102), Expect = 5e-04
Identities = 51/240 (21%), Positives = 75/240 (31%), Gaps = 92/240 (38%)
Query: 467 MPLYPTQEI---IWNE--------------NIV---PTE---YFSGEGCLALPK--LNLQ 501
M LY T + +WN +IV P +F GE + + +
Sbjct: 1633 MDLYKTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 502 FLTLHDYLLRNFNLFRL--ESTCRVNY-----VLAK------RLDLLQEV---ERLQKSL 545
F T+ D L+ +F+ E + + +L+ L L E E L+
Sbjct: 1693 FETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPAL-TLMEKAAFEDLKSKG 1751
Query: 546 DVSGDVAYTCETAGHFFL--YQVLA------RWEKFLATVRQR---KQDRRKPAVSRTNI 594
+ D + AGH L Y LA E + V R Q AV R +
Sbjct: 1752 LIPADATF----AGHS-LGEYAALASLADVMSIESLVEVVFYRGMTMQV----AVPRDEL 1802
Query: 595 IREK------QPSRVRADV---------------------IVNLNVKRE---IKGEWESL 624
R P RV A IVN NV+ + G+ +L
Sbjct: 1803 GRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVENQQYVAAGDLRAL 1862
Score = 38.9 bits (90), Expect = 0.012
Identities = 33/190 (17%), Positives = 56/190 (29%), Gaps = 51/190 (26%)
Query: 139 DE-DVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLTLV 197
+ D ++ G I+ + + N P TI F + + IR +
Sbjct: 1647 NRADNHFKDTYGFSILDI-----------VINNPVNLTIHFGGEKGKRIRENYSA-MIFE 1694
Query: 198 VGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQ---------LFEKIISLDVD 248
G KT+ + I+ H + L+ L EK D+
Sbjct: 1695 TIVDGKLKTEKIFKEIN------EHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLK 1748
Query: 249 ERHLLRL-----GH--GE--------EALETEKDFSRYGRVNYVLAKRLDLLQE-VERLQ 292
+ L+ GH GE + + E V+ R +Q V R +
Sbjct: 1749 SKGLIPADATFAGHSLGEYAALASLADVMSIE-SLVE------VVFYRGMTMQVAVPRDE 1801
Query: 293 KSLDVSGDVA 302
G +A
Sbjct: 1802 LGRSNYGMIA 1811
>2gk6_A Regulator of nonsense transcripts 1; UPF1, helicase, NMD,
hydrolase; HET: ADP; 2.40A {Homo sapiens} PDB: 2gjk_A*
2gk7_A 2xzo_A* 2xzp_A
Length = 624
Score = 60.2 bits (146), Expect = 3e-09
Identities = 45/182 (24%), Positives = 70/182 (38%), Gaps = 29/182 (15%)
Query: 155 VEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIIS 214
VE +I + P F +Q+ A++ +Q L+L+ GPPGTGKT + I+
Sbjct: 160 VEDVIIKCQLPKRFTAQ--GLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVY 217
Query: 215 NLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLGHGE-EALE------TEKD 267
+L + L+ SN A++QL EKI + ++RL EA++ +
Sbjct: 218 HLARQ-GNGPVLVCAPSNIAVDQLTEKIHQTGLK---VVRLCAKSREAIDSPVSFLALHN 273
Query: 268 FSRYGRVNYVLAKRLDLLQEVERLQKS----------------LDVSGDVAYTCETAGHF 311
R L K L E L + L + + TC AG
Sbjct: 274 QIRNMDSMPELQKLQQLKDETGELSSADEKRYRALKRTAERELLMNADVICCTCVGAGDP 333
Query: 312 FL 313
L
Sbjct: 334 RL 335
Score = 50.2 bits (120), Expect = 3e-06
Identities = 26/90 (28%), Positives = 45/90 (50%), Gaps = 3/90 (3%)
Query: 799 EIRVKTDNPTKLVPPF--KLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYH 856
++ +K P + L ++ A++ +Q L+L+ GPPGTGKT + I+ +L
Sbjct: 162 DVIIKCQLPKRFTAQGLPDLNHSQVYAVKTVLQRPLSLIQGPPGTGKTVTSATIVYHLAR 221
Query: 857 NFPHQRTLIVTHSNQALNQLFEKIISLDVD 886
+ L+ SN A++QL EKI +
Sbjct: 222 Q-GNGPVLVCAPSNIAVDQLTEKIHQTGLK 250
>2jss_A Chimera of histone H2B.1 and histone H2A.Z; histone/chaperone
complex, intrinsically unfolded protein,
chaperone/structural protein complex; NMR {Saccharomyces
cerevisiae} SCOP: a.22.1.1 a.22.1.1
Length = 192
Score = 55.2 bits (131), Expect = 1e-08
Identities = 22/39 (56%), Positives = 27/39 (69%), Gaps = 1/39 (2%)
Query: 892 HKKYRITPRYLLLAIKNDVELSQLLSDVTIAQGGVMPNI 930
K RITPR+L LAI+ D EL L+ TIA GGV+P+I
Sbjct: 155 LKVKRITPRHLQLAIRGDDELDSLIR-ATIASGGVLPHI 192
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 51.2 bits (123), Expect = 4e-07
Identities = 22/110 (20%), Positives = 36/110 (32%), Gaps = 22/110 (20%)
Query: 136 ENEDEDVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLT 195
E+ + D P + + R Q +A+ +
Sbjct: 69 ESNGIEFVDNAADPIPTPYFDAEI----------SLR-------DYQEKALERWLVDKRG 111
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISL 245
+V P G+GKT VA+ I+ L TLIV + Q E++
Sbjct: 112 CIVLPTGSGKTHVAMAAINEL-----STPTLIVVPTLALAEQWKERLGIF 156
Score = 50.4 bits (121), Expect = 8e-07
Identities = 21/105 (20%), Positives = 37/105 (35%), Gaps = 9/105 (8%)
Query: 799 EIRVKTDNPTKLV---PPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLY 855
E +P L ++ +A+ + +V P G+GKT VA+ I+ L
Sbjct: 74 EFVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINEL- 132
Query: 856 HNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLH-KKYRITP 899
TLIV + Q E++ + + + P
Sbjct: 133 ----STPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIKELKP 173
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 48.7 bits (116), Expect = 7e-06
Identities = 22/110 (20%), Positives = 36/110 (32%), Gaps = 22/110 (20%)
Query: 136 ENEDEDVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLT 195
E+ + D P + + R Q +A+ +
Sbjct: 69 ESNGIEFVDNAADPIPTPYFDAEI----------SLR-------DYQEKALERWLVDKRG 111
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISL 245
+V P G+GKT VA+ I+ L TLIV + Q E++
Sbjct: 112 CIVLPTGSGKTHVAMAAINELS-----TPTLIVVPTLALAEQWKERLGIF 156
Score = 48.3 bits (115), Expect = 9e-06
Identities = 20/101 (19%), Positives = 36/101 (35%), Gaps = 8/101 (7%)
Query: 799 EIRVKTDNPTKLV---PPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLY 855
E +P L ++ +A+ + +V P G+GKT VA+ I+ L
Sbjct: 74 EFVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMAAINELS 133
Query: 856 HNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLHKKYR 896
TLIV + Q E++ + + +
Sbjct: 134 -----TPTLIVVPTLALAEQWKERLGIFGEEYVGEFSGRIK 169
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 48.4 bits (114), Expect = 1e-05
Identities = 21/103 (20%), Positives = 40/103 (38%)
Query: 129 KKRTEEEENEDEDVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRA 188
+ T+ E+ E +++ +P + ++ + P T QIE +
Sbjct: 200 SEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQP 259
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 231
+ L+ P G+GKT V++ I + + N P R V
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 302
Score = 41.9 bits (97), Expect = 0.001
Identities = 29/195 (14%), Positives = 58/195 (29%), Gaps = 11/195 (5%)
Query: 680 PEPRPVLPGDTRTFRVMLDCNQYKEDLDNVAQ-----GNEDVYETFNVLMRRKPKENNFK 734
V P + + + + + Q + R KE+ K
Sbjct: 114 ATMLEVDPVALIPY---ISTCLIDRECEEIQQISENRSKAAGITKLIECLCRSDKEHWPK 170
Query: 735 AVLETIRDLMNTECVVPDWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTFLNMDHLRSS 794
++ + + + D A+M +++ D+L +
Sbjct: 171 SLQLALDTTGYYRASELWDIREDNAKDVDSEMTD-ASEDCLEASMTYSEEAEPDDNLSEN 229
Query: 795 FPQAEIRVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNL 854
A + P K ++IE + + L+ P G+GKT V++ I +
Sbjct: 230 LGSAAEGIGKPPPVY--ETKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHH 287
Query: 855 YHNFPHQRTLIVTHS 869
+ N P R V
Sbjct: 288 FQNMPAGRKAKVVFL 302
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 46.9 bits (110), Expect = 3e-05
Identities = 21/102 (20%), Positives = 40/102 (39%)
Query: 129 KKRTEEEENEDEDVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQIEAIRA 188
+ T+ E+ E +++ +P + ++ + P T QIE +
Sbjct: 200 SEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKARSYQIELAQP 259
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 230
+ L+ P G+GKT V++ I + + N P R V
Sbjct: 260 AINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVF 301
Score = 41.9 bits (97), Expect = 0.001
Identities = 27/191 (14%), Positives = 59/191 (30%), Gaps = 5/191 (2%)
Query: 680 PEPRPVLPGDTRTFRVMLDCNQYKEDLDNVAQ--GNEDVYETFNVLMRRKPKENNFKAVL 737
V P + ++ E++ +++ + R KE+ K++
Sbjct: 114 ATMLEVDPVALIPYISTCLIDRECEEIQQISENRSKAAGITKLIECLCRSDKEHWPKSLQ 173
Query: 738 ETIRDLMNTECVVPDWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTFLNMDHLRSSFPQ 797
+ + + D +E E + + + + +
Sbjct: 174 LALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSA 233
Query: 798 AEIRVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHN 857
AE K + ++IE + + L+ P G+GKT V++ I + + N
Sbjct: 234 AEGIGKPPPVYETKKARS---YQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQN 290
Query: 858 FPHQRTLIVTH 868
P R V
Sbjct: 291 MPAGRKAKVVF 301
>3e1s_A Exodeoxyribonuclease V, subunit RECD; alpha and beta protein,
ATP-binding, nucleotide-binding, HYD; 2.20A {Deinococcus
radiodurans} PDB: 3gp8_A 3gpl_A*
Length = 574
Score = 44.7 bits (106), Expect = 1e-04
Identities = 14/72 (19%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 171 PRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 230
P+K + Q + L ++ G PGTGK+ + +L + +
Sbjct: 183 PKKARKGLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAVA-DLAES-LGLEVGLCAP 240
Query: 231 SNQALNQLFEKI 242
+ +A +L E
Sbjct: 241 TGKAARRLGEVT 252
Score = 37.8 bits (88), Expect = 0.022
Identities = 12/69 (17%), Positives = 25/69 (36%), Gaps = 2/69 (2%)
Query: 812 PPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQ 871
L+ + + L ++ G PGTGK+ + +L + + + +
Sbjct: 186 ARKGLSEEQASVLDQLAGHRLVVLTGGPGTGKSTTTKAVA-DLAES-LGLEVGLCAPTGK 243
Query: 872 ALNQLFEKI 880
A +L E
Sbjct: 244 AARRLGEVT 252
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 42.5 bits (100), Expect = 3e-04
Identities = 15/65 (23%), Positives = 29/65 (44%), Gaps = 4/65 (6%)
Query: 182 QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHN----FPHQRTLIVTHSNQALNQ 237
Q+E + ++ ++ P G+GKT VAV I + + +++ + + Q
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQ 97
Query: 238 LFEKI 242
LF K
Sbjct: 98 LFRKE 102
Score = 38.6 bits (90), Expect = 0.004
Identities = 14/64 (21%), Positives = 28/64 (43%), Gaps = 4/64 (6%)
Query: 821 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHN----FPHQRTLIVTHSNQALNQL 876
+E + ++ ++ P G+GKT VAV I + + +++ + + QL
Sbjct: 39 MEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPGKVIVLVNKVLLVEQL 98
Query: 877 FEKI 880
F K
Sbjct: 99 FRKE 102
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 41.1 bits (96), Expect = 0.002
Identities = 17/74 (22%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 184 EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 242
E G + L G GTGKT + + + N N +R ++ + ++ QL
Sbjct: 272 EMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYE-ESRAQLLRNA 328
Query: 243 ISLDVDERHLLRLG 256
S +D + R
Sbjct: 329 YSWGMDFEEMERQN 342
Score = 39.9 bits (93), Expect = 0.005
Identities = 16/74 (21%), Positives = 29/74 (39%), Gaps = 4/74 (5%)
Query: 822 EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
E G + L G GTGKT + + + N N +R ++ + ++ QL
Sbjct: 272 EMCGGGFFKDSIILATGATGTGKTLLVSRFVENACAN--KERAILFAYE-ESRAQLLRNA 328
Query: 881 ISLDVDERHLLHKK 894
S +D + +
Sbjct: 329 YSWGMDFEEMERQN 342
Score = 39.1 bits (91), Expect = 0.007
Identities = 24/93 (25%), Positives = 35/93 (37%), Gaps = 7/93 (7%)
Query: 169 NEPRKNTIPFTPTQI----EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQ 223
N I T I + G+ G TLV G GTGKT ++Q + N F +
Sbjct: 11 NNSEHQAIAKMRTMIEGFDDISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEF-DE 69
Query: 224 RTLIVTHSNQALNQLFEKIISLDVDERHLLRLG 256
+ VT + + + S D L+ G
Sbjct: 70 PGVFVTFE-ETPQDIIKNARSFGWDLAKLVDEG 101
Score = 37.6 bits (87), Expect = 0.024
Identities = 23/103 (22%), Positives = 40/103 (38%), Gaps = 7/103 (6%)
Query: 822 EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
+ G+ G TLV G GTGKT ++Q + N F + + VT + + +
Sbjct: 30 DISHGGLPIGRSTLVSGTSGTGKTLFSIQFLYNGIIEF-DEPGVFVTFE-ETPQDIIKNA 87
Query: 881 ISLDVDERHLLHKK----YRITPRYLLLAIKNDVELSQLLSDV 919
S D L+ + +P + +LS L+ +
Sbjct: 88 RSFGWDLAKLVDEGKLFILDASPDPEGQEVVGGFDLSALIERI 130
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 39.5 bits (92), Expect = 0.003
Identities = 24/127 (18%), Positives = 41/127 (32%), Gaps = 7/127 (5%)
Query: 175 TIPFTPTQI----EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVT 229
+ + I E I G G L+ G GTGKT A Q I + + + VT
Sbjct: 8 PVRRVKSGIPGFDELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVT 66
Query: 230 HSNQALNQLFEKIISLDVDERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQEVE 289
+ L ++ S D + G +VL R ++ +
Sbjct: 67 -LEERARDLRREMASFGWDFEKYEKEGKIAIVDGVSSVVGLPSEEKFVLEDRFNVDNFLR 125
Query: 290 RLQKSLD 296
+ + +
Sbjct: 126 YIYRVVK 132
Score = 35.3 bits (81), Expect = 0.074
Identities = 19/71 (26%), Positives = 26/71 (36%), Gaps = 3/71 (4%)
Query: 822 EAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
E I G G L+ G GTGKT A Q I + + + VT + L ++
Sbjct: 21 ELIEGGFPEGTTVLLTGGTGTGKTTFAAQFIYKGAEEY-GEPGVFVT-LEERARDLRREM 78
Query: 881 ISLDVDERHLL 891
S D
Sbjct: 79 ASFGWDFEKYE 89
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 39.2 bits (90), Expect = 0.007
Identities = 17/57 (29%), Positives = 27/57 (47%)
Query: 807 PTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRT 863
T L PFK +++E M+ T++ P G GKT V++ I + FP +
Sbjct: 5 DTNLYSPFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK 61
Score = 38.0 bits (87), Expect = 0.019
Identities = 16/51 (31%), Positives = 24/51 (47%), Gaps = 2/51 (3%)
Query: 177 PFTPT--QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRT 225
PF P Q+E M+ T++ P G GKT V++ I + FP +
Sbjct: 11 PFKPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEHHLKKFPQGQK 61
>3vkw_A Replicase large subunit; alpha/beta domain, helicase, transferase;
1.90A {Tomato mosaic virus}
Length = 446
Score = 39.0 bits (90), Expect = 0.007
Identities = 24/140 (17%), Positives = 44/140 (31%), Gaps = 10/140 (7%)
Query: 134 EEENEDEDVEMENKDGKPIITVEPH--VIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQ 191
E V + D IIT + V S ++++ K +
Sbjct: 102 ETHARKYHVALLEHDEFGIITCDNWRRVAVSSESVVYSDMAK-LRTLRRLLKDGEPHVSS 160
Query: 192 PGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERH 251
+ LV G PG GKT + I + + + LI+ QA + + + +
Sbjct: 161 AKVVLVDGVPGCGKT----KEILSRVNF---EEDLILVPGRQAAEMIRRRANASGIIVAT 213
Query: 252 LLRLGHGEEALETEKDFSRY 271
+ + L +R
Sbjct: 214 KDNVRTVDSFLMNYGKGARC 233
Score = 34.4 bits (78), Expect = 0.22
Identities = 13/59 (22%), Positives = 22/59 (37%), Gaps = 7/59 (11%)
Query: 822 EAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 880
+ + LV G PG GKT + I + + + LI+ QA + +
Sbjct: 153 DGEPHVSSAKVVLVDGVPGCGKT----KEILSRVNF---EEDLILVPGRQAAEMIRRRA 204
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 38.5 bits (90), Expect = 0.007
Identities = 20/113 (17%), Positives = 41/113 (36%), Gaps = 5/113 (4%)
Query: 189 GMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDV 247
G+ + L+ G PGTGKT + Q + N + + V + Q+ + +
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALE-EHPVQVRQNMAQFGW 75
Query: 248 DERHLLRLGHGE-EALETEKDFSRYGRVNYVLAKRLDLLQEVERLQKSLDVSG 299
D + G T Y++ D+ + +E L++++
Sbjct: 76 DVKPYEEKGMFAMVDAFTAGIGKSKEYEKYIVHDLTDIREFIEVLRQAIRDIN 128
Score = 35.1 bits (81), Expect = 0.099
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 4/66 (6%)
Query: 827 GMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDV 885
G+ + L+ G PGTGKT + Q + N + + V + Q+ + +
Sbjct: 19 GIPERNVVLLSGGPGTGKTIFSQQFLWNGLKM--GEPGIYVALE-EHPVQVRQNMAQFGW 75
Query: 886 DERHLL 891
D +
Sbjct: 76 DVKPYE 81
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 38.4 bits (88), Expect = 0.014
Identities = 16/58 (27%), Positives = 24/58 (41%)
Query: 174 NTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 231
T QIE + + L+ P G+GKT V++ I + + N P R V
Sbjct: 4 ETKKARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 61
Score = 34.9 bits (79), Expect = 0.17
Identities = 14/49 (28%), Positives = 22/49 (44%)
Query: 821 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 869
IE + + L+ P G+GKT V++ I + + N P R V
Sbjct: 13 IELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMPAGRKAKVVFL 61
>2r2a_A Uncharacterized protein; zonular occludens toxin, structural
genomics, APC84050.2, PS protein structure initiative;
HET: MSE; 1.82A {Neisseria meningitidis MC58}
Length = 199
Score = 36.6 bits (84), Expect = 0.019
Identities = 15/87 (17%), Positives = 34/87 (39%), Gaps = 8/87 (9%)
Query: 188 AGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRT---LIVTHSNQALNQLFEKIIS 244
M + L+ G PG+GKT V +++N P + + T+ + L
Sbjct: 2 NAMAE-ICLITGTPGSGKTLKMVSMMANDEMFKPDENGIRRKVFTN----IKGLKIPHTY 56
Query: 245 LDVDERHLLRLGHGEEALETEKDFSRY 271
++ D + L + + + ++ +
Sbjct: 57 IETDAKKLPKSTDEQLSAHDMYEWIKK 83
Score = 34.7 bits (79), Expect = 0.099
Identities = 10/30 (33%), Positives = 16/30 (53%), Gaps = 1/30 (3%)
Query: 826 AGMQPGLTLVVGPPGTGKTDVAVQIISNLY 855
M + L+ G PG+GKT V +++N
Sbjct: 2 NAMAE-ICLITGTPGSGKTLKMVSMMANDE 30
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 37.9 bits (87), Expect = 0.023
Identities = 29/158 (18%), Positives = 48/158 (30%), Gaps = 17/158 (10%)
Query: 86 KKRTEEEENEDEDVEMENKDANVLTTTPPRQAIIIGFLLIQVLKKRTEEEENEDEDVEME 145
K ++ + V ++ + + + L + V +
Sbjct: 102 SKTEDKNKKVVVPVLADSFEQEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALP 161
Query: 146 NKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFT--PTQIEAIRAGMQPGLTLVVGPPGT 203
I V +R T PFT P Q AI + LV
Sbjct: 162 PNYDYTPIAEHKRVNEAR-----------TYPFTLDPFQDTAISCIDRGESVLVSAHTSA 210
Query: 204 GKTDVAVQIISNLYHNFPHQRTLIVTHSNQAL-NQLFE 240
GKT VA I + +++ +I T +AL NQ +
Sbjct: 211 GKTVVAEYAI---AQSLKNKQRVIYTSPIKALSNQKYR 245
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 37.0 bits (85), Expect = 0.023
Identities = 12/50 (24%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 802 VKTDNPTKLVPPFKLTFHEIEAIRAGMQPG-LTLVVGPPGTGKTDVAVQI 850
+ T P ++ F ++ + M G + +V P G GK+ +A+Q+
Sbjct: 1 MATHKPINILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKSMLALQL 50
Score = 32.4 bits (73), Expect = 0.68
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 193 GLTLVVGPPGTGKTDVAVQI 212
+ +V P G GK+ +A+Q+
Sbjct: 31 TVGALVSPGGAGKSMLALQL 50
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}
Length = 235
Score = 36.5 bits (85), Expect = 0.024
Identities = 13/69 (18%), Positives = 27/69 (39%), Gaps = 4/69 (5%)
Query: 189 GMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDV 247
G+ G + G PGTGKT ++ I+ + + VT ++ + + + +
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTE-ESRDSIIRQAKQFNW 75
Query: 248 DERHLLRLG 256
D +
Sbjct: 76 DFEEYIEKK 84
Score = 36.1 bits (84), Expect = 0.037
Identities = 15/69 (21%), Positives = 29/69 (42%), Gaps = 4/69 (5%)
Query: 827 GMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDV 885
G+ G + G PGTGKT ++ I+ + + VT ++ + + + +
Sbjct: 19 GIPQGFFIALTGEPGTGKTIFSLHFIAKGLRD--GDPCIYVTTE-ESRDSIIRQAKQFNW 75
Query: 886 DERHLLHKK 894
D + KK
Sbjct: 76 DFEEYIEKK 84
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 37.6 bits (86), Expect = 0.025
Identities = 14/146 (9%), Positives = 42/146 (28%), Gaps = 12/146 (8%)
Query: 118 IIIGFL--LIQVLKKRTEEEENEDEDVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNT 175
+ G + + + + + + + + + L
Sbjct: 60 LPFGLVGQIKKFCDNFGYKAWIDPQI-----NEKEEL---SRKDFDEWLSKLEIYSGNKR 111
Query: 176 IPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQAL 235
I Q +A+ G+ ++ P G++ + + N + LI+ +
Sbjct: 112 IEPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLEN-YEGKILIIVPTTALT 170
Query: 236 NQLFEKIIS-LDVDERHLLRLGHGEE 260
Q+ + + + ++G G
Sbjct: 171 TQMADDFVDYRLFSHAMIKKIGGGAS 196
Score = 37.2 bits (85), Expect = 0.027
Identities = 10/117 (8%), Positives = 36/117 (30%), Gaps = 1/117 (0%)
Query: 801 RVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPH 860
+ + +++ +A+ G+ ++ P G++ + + N
Sbjct: 99 WLSKLEIYSGNKRIEPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQALLARYYLEN-YE 157
Query: 861 QRTLIVTHSNQALNQLFEKIISLDVDERHLLHKKYRITPRYLLLAIKNDVELSQLLS 917
+ LI+ + Q+ + + + ++ K + V + +
Sbjct: 158 GKILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGASKDDKYKNDAPVVVGTWQT 214
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 36.8 bits (84), Expect = 0.038
Identities = 13/47 (27%), Positives = 21/47 (44%)
Query: 182 QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIV 228
Q+E + T++ P G GKT V++ I + FP + V
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKV 55
Score = 34.5 bits (78), Expect = 0.22
Identities = 14/54 (25%), Positives = 24/54 (44%)
Query: 813 PFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIV 866
P K +++E + T++ P G GKT V++ I + FP + V
Sbjct: 2 PLKPRNYQLELALPAKKGKNTIICAPTGCGKTFVSLLICEHHLKKFPCGQKGKV 55
>1w36_D RECD, exodeoxyribonuclease V alpha chain; recombination, helicase,
hydrolase, DNA repair; HET: DNA; 3.1A {Escherichia coli}
SCOP: c.37.1.19 c.37.1.19 PDB: 3k70_D*
Length = 608
Score = 35.9 bits (83), Expect = 0.077
Identities = 12/50 (24%), Positives = 22/50 (44%)
Query: 179 TPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIV 228
Q A + ++++ G PGTGKT ++++ L +R I
Sbjct: 151 INWQKVAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIR 200
Score = 32.8 bits (75), Expect = 0.70
Identities = 11/45 (24%), Positives = 21/45 (46%)
Query: 822 EAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIV 866
A + ++++ G PGTGKT ++++ L +R I
Sbjct: 156 VAAAVALTRRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIR 200
>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 = 34.6 bits (79), Expect = 0.082
Identities = 7/38 (18%), Positives = 17/38 (44%), Gaps = 12/38 (31%)
Query: 659 YVRG---CEIEGMLDVNGRIIEDGPEPRPVLPGDTRTF 693
+ G C + G++ ++ ++++ E RTF
Sbjct: 38 FSEGDVVCALCGLV-LSDKLVDTRSEW--------RTF 66
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 35.5 bits (81), Expect = 0.10
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 172 RKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVT 229
R++ I Q + L+V P G GKT +A+ I + + ++
Sbjct: 4 RRDLIQPRIYQEVIYAKCKETN-CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP 60
Score = 31.3 bits (70), Expect = 2.1
Identities = 9/35 (25%), Positives = 16/35 (45%)
Query: 833 TLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVT 867
L+V P G GKT +A+ I + + ++
Sbjct: 26 CLIVLPTGLGKTLIAMMIAEYRLTKYGGKVLMLAP 60
>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural
genomics, PSI, protein struc initiative; 3.20A
{Agrobacterium tumefaciens str} SCOP: c.37.1.25
Length = 191
Score = 34.3 bits (78), Expect = 0.11
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 186 IRAGMQPGLTLVVGPPGTGKTDVA 209
+ + + L+ G PG+GK+ +A
Sbjct: 3 MTDDLGGNILLLSGHPGSGKSTIA 26
Score = 34.3 bits (78), Expect = 0.11
Identities = 7/24 (29%), Positives = 14/24 (58%)
Query: 824 IRAGMQPGLTLVVGPPGTGKTDVA 847
+ + + L+ G PG+GK+ +A
Sbjct: 3 MTDDLGGNILLLSGHPGSGKSTIA 26
>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 = 35.0 bits (80), Expect = 0.12
Identities = 18/90 (20%), Positives = 32/90 (35%), Gaps = 13/90 (14%)
Query: 820 EIEAIRA-------GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLI------V 866
+I I + +P + G GTGKT V ++S L+ F + + +
Sbjct: 28 QIRKIASILAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQI 87
Query: 867 THSNQALNQLFEKIISLDVDERHLLHKKYR 896
+ L L E + + + YR
Sbjct: 88 DTPYRVLADLLESLDVKVPFTGLSIAELYR 117
Score = 33.5 bits (76), Expect = 0.38
Identities = 14/66 (21%), Positives = 26/66 (39%), Gaps = 6/66 (9%)
Query: 183 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLI------VTHSNQALN 236
+ + +P + G GTGKT V ++S L+ F + + + + L
Sbjct: 36 LAPLYREEKPNNIFIYGLTGTGKTAVVKFVLSKLHKKFLGKFKHVYINTRQIDTPYRVLA 95
Query: 237 QLFEKI 242
L E +
Sbjct: 96 DLLESL 101
>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate
hydrolases fold, S genomics, joint center for structural
genomics, JCSG; HET: MSE; 1.70A {Chloroflexus
aurantiacus}
Length = 193
Score = 33.8 bits (77), Expect = 0.16
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 189 GMQ-PGLTLVVGPPGTGKTDVA 209
GMQ P L +V G P TGKT ++
Sbjct: 1 GMQTPALIIVTGHPATGKTTLS 22
Score = 33.8 bits (77), Expect = 0.16
Identities = 12/22 (54%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 827 GMQ-PGLTLVVGPPGTGKTDVA 847
GMQ P L +V G P TGKT ++
Sbjct: 1 GMQTPALIIVTGHPATGKTTLS 22
>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups,
carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}
Length = 321
Score = 34.6 bits (79), Expect = 0.17
Identities = 18/106 (16%), Positives = 31/106 (29%), Gaps = 13/106 (12%)
Query: 182 QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH-----SNQALN 236
Q P + + G GK+ + + + L H ++T SN L
Sbjct: 82 QFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITTDGFLYSNAKLE 141
Query: 237 QL-----FEKIISLDVD--ERHLLRLGHGEEALET-EKDFSRYGRV 274
+ S D+ R L + G+ + Y V
Sbjct: 142 KQGLMKRKGFPESYDMPSLLRVLNAIKSGQRNVRIPVYSHHYYDIV 187
Score = 32.3 bits (73), Expect = 0.76
Identities = 7/50 (14%), Positives = 17/50 (34%)
Query: 819 HEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 868
++ P + + G GK+ + + + L H ++T
Sbjct: 81 YQFLGKPEPKVPYIIGIAGSVAVGKSTTSRVLKALLSRWPDHPNVEVITT 130
>3upu_A ATP-dependent DNA helicase DDA; RECA-like domain, SH3 domain,
PIN-tower interface, coupling hydrolysis to DNA
unwinding, ssDNA; 3.30A {Enterobacteria phage T4}
Length = 459
Score = 34.6 bits (79), Expect = 0.18
Identities = 13/50 (26%), Positives = 16/50 (32%), Gaps = 5/50 (10%)
Query: 172 RKNTIPFTPTQIEAIRAGMQ-----PGLTLVVGPPGTGKTDVAVQIISNL 216
T Q A M+ + GP GTG T + II L
Sbjct: 20 HMTFDDLTEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEAL 69
Score = 29.2 bits (65), Expect = 8.3
Identities = 13/46 (28%), Positives = 17/46 (36%), Gaps = 5/46 (10%)
Query: 814 FKLTFHEIEAIRAGMQ-----PGLTLVVGPPGTGKTDVAVQIISNL 854
LT + A M+ + GP GTG T + II L
Sbjct: 24 DDLTEGQKNAFNIVMKAIKEKKHHVTINGPAGTGATTLTKFIIEAL 69
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 34.4 bits (79), Expect = 0.20
Identities = 24/103 (23%), Positives = 37/103 (35%), Gaps = 12/103 (11%)
Query: 167 LFNEPRKNTIPFTPTQIEAIRA---GMQPGL--TLVVGPPGTGKTDVAVQIISNLYH--- 218
L + Q AI + G +L+ GTGKT VA QI L+
Sbjct: 168 LSPYHHVSGYSPRYYQQIAINRAVQSVLQGKKRSLITMATGTGKTVVAFQISWKLWSARW 227
Query: 219 ----NFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRLGH 257
++ R L + N ++ +K + D RH + G
Sbjct: 228 NRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGDARHKIEGGK 270
Score = 34.4 bits (79), Expect = 0.25
Identities = 21/80 (26%), Positives = 33/80 (41%), Gaps = 7/80 (8%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYH-------NFPHQRTLIVTHSNQALNQLFEKIISLDVD 886
L+ GTGKT VA QI L+ ++ R L + N ++ +K + D
Sbjct: 202 LITMATGTGKTVVAFQISWKLWSARWNRTGDYRKPRILFLADRNVLVDDPKDKTFTPFGD 261
Query: 887 ERHLLHKKYRITPRYLLLAI 906
RH + + R + AI
Sbjct: 262 ARHKIEGGKVVKSREIYFAI 281
>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 = 34.0 bits (77), Expect = 0.28
Identities = 13/99 (13%), Positives = 25/99 (25%)
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVD 248
G ++G PGTGKT ++ + I + + +I
Sbjct: 41 GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSLNI 100
Query: 249 ERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQE 287
L E + +++ L
Sbjct: 101 PFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAP 139
Score = 32.5 bits (73), Expect = 0.82
Identities = 10/56 (17%), Positives = 18/56 (32%)
Query: 827 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIIS 882
G ++G PGTGKT ++ + I + + +I
Sbjct: 41 GHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIAR 96
>1y63_A LMAJ004144AAA protein; structural genomics, protein structure
initiative, PSI, SGPP structural genomics of pathogenic
protozoa consortium; HET: ADP; 1.70A {Leishmania major}
SCOP: c.37.1.1
Length = 184
Score = 33.2 bits (75), Expect = 0.30
Identities = 22/108 (20%), Positives = 40/108 (37%), Gaps = 11/108 (10%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRL 255
L+ G PGTGKT +A ++I+ F H + N + ++ + ++E+ RL
Sbjct: 14 LITGTPGTGKTSMA-EMIAAELDGFQHLEVGKLVKENHFYTEYDTELDTHIIEEKDEDRL 72
Query: 256 GHGEEALETEK----------DFSRYGRVNYVLAKRLDLLQEVERLQK 293
E + + + + V+ ERL K
Sbjct: 73 LDFMEPIMVSRGNHVVDYHSSELFPERWFHMVVVLHTSTEVLFERLTK 120
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 34.1 bits (78), Expect = 0.31
Identities = 13/67 (19%), Positives = 27/67 (40%), Gaps = 4/67 (5%)
Query: 833 TLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLH 892
++ GPPG+GKT +++ FP + + S+ +L K + +
Sbjct: 1307 LILCGPPGSGKT----MTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYKRTPS 1362
Query: 893 KKYRITP 899
+ + P
Sbjct: 1363 GETVLRP 1369
Score = 33.7 bits (77), Expect = 0.42
Identities = 12/56 (21%), Positives = 24/56 (42%), Gaps = 4/56 (7%)
Query: 195 TLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDER 250
++ GPPG+GKT +++ FP + + S+ +L K + +
Sbjct: 1307 LILCGPPGSGKT----MTLTSTLRAFPDFEVVSLNFSSATTPELLLKTFDHHCEYK 1358
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 34.2 bits (78), Expect = 0.31
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 13/97 (13%)
Query: 169 NEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQ----IISNLYHNFPHQR 224
N P+ +T Q AI + Q LV G+GKT V V+ I+ + R
Sbjct: 2 NIPKPADSTWTDDQWNAIVSTGQD--ILVAAAAGSGKTAVLVERMIRKITAEENPIDVDR 59
Query: 225 TLIVTHSNQA-------LNQLFEKIISLDVDERHLLR 254
L+VT +N + + + EK + H+ R
Sbjct: 60 LLVVTFTNASAAEMKHRIAEALEKELVQRPGSLHIRR 96
>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292;
mixed alpha-beta protein, rossman fold, signaling
protein, transferase; 1.40A {Aquifex aeolicus} SCOP:
c.37.1.11
Length = 178
Score = 32.7 bits (74), Expect = 0.41
Identities = 14/67 (20%), Positives = 25/67 (37%), Gaps = 1/67 (1%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLHK 893
++ G PG GKT + +I+ L T V F +II+ + ++ K
Sbjct: 4 IITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGF-RIITTEGKKKIFSSK 62
Query: 894 KYRITPR 900
+
Sbjct: 63 FFTSKKL 69
Score = 29.6 bits (66), Expect = 3.6
Identities = 13/59 (22%), Positives = 23/59 (38%), Gaps = 1/59 (1%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLR 254
++ G PG GKT + +I+ L T V F +II+ + ++
Sbjct: 4 IITGEPGVGKTTLVKKIVERLGKRAIGFWTEEVRDPETKKRTGF-RIITTEGKKKIFSS 61
>3io5_A Recombination and repair protein; storage dimer, inactive
conformation, RECA like core domain, binding, DNA
damage, DNA recombination; 2.40A {Enterobacteria phage
T4}
Length = 333
Score = 32.9 bits (75), Expect = 0.48
Identities = 14/76 (18%), Positives = 34/76 (44%), Gaps = 2/76 (2%)
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVD 248
GMQ GL ++ GP + K++ + ++S+ +P L S + + + + +D +
Sbjct: 25 GMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD-SEFGITPAYLRSMGVDPE 83
Query: 249 ERHLLRLGHGEE-ALE 263
+ E+ ++
Sbjct: 84 RVIHTPVQSLEQLRID 99
Score = 31.7 bits (72), Expect = 1.2
Identities = 14/66 (21%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 827 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVD 886
GMQ GL ++ GP + K++ + ++S+ +P L S + + + + +D +
Sbjct: 25 GMQSGLLILAGPSKSFKSNFGLTMVSSYMRQYPDAVCLFYD-SEFGITPAYLRSMGVDPE 83
Query: 887 ERHLLH 892
++H
Sbjct: 84 R--VIH 87
>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 = 33.2 bits (75), Expect = 0.48
Identities = 9/42 (21%), Positives = 14/42 (33%), Gaps = 7/42 (16%)
Query: 820 EIEAIRA-------GMQPGLTLVVGPPGTGKTDVAVQIISNL 854
+ L +G GTGKT V+ I + +
Sbjct: 28 ILRDAAIAIRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI 69
Score = 32.8 bits (74), Expect = 0.55
Identities = 10/34 (29%), Positives = 14/34 (41%)
Query: 183 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNL 216
I L +G GTGKT V+ I + +
Sbjct: 36 IRYFVKNEVKFSNLFLGLTGTGKTFVSKYIFNEI 69
>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR;
HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB:
1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*
Length = 262
Score = 32.7 bits (74), Expect = 0.50
Identities = 17/108 (15%), Positives = 37/108 (34%), Gaps = 8/108 (7%)
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVD 248
GM + + VG G+GKT + + + + + +L + +D
Sbjct: 11 GMASMIVVFVGTAGSGKT----TLTGEFGRYLEDNYKVAYVNLDTGVKELPYEP---SID 63
Query: 249 ERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQEVERLQKSLD 296
R + + + ++ K + L ++ RL+K D
Sbjct: 64 VREFVTVEEIMREGYGPNGAIVES-YDRLMEKFNEYLNKILRLEKEND 110
Score = 32.0 bits (72), Expect = 1.0
Identities = 8/18 (44%), Positives = 11/18 (61%)
Query: 827 GMQPGLTLVVGPPGTGKT 844
GM + + VG G+GKT
Sbjct: 11 GMASMIVVFVGTAGSGKT 28
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 33.0 bits (74), Expect = 0.57
Identities = 26/174 (14%), Positives = 52/174 (29%), Gaps = 24/174 (13%)
Query: 681 EPRPVLPGDTRTFRVMLDCNQYKEDLDNVAQGNEDVYETFNVLMRRKPKENN-----FKA 735
P V P + D + V + + Y+ +++ + F
Sbjct: 20 VPLTVKPQGPSADGDVGAELTRPLDKNEVKKVLDKFYK--RKEIQKLGADYGLDARLFHQ 77
Query: 736 VLETIRDLMNTECVVPDWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTFLNMDHLRSSF 795
+ R+ + + +H ++ A P + H + F
Sbjct: 78 AFISFRNYIMQSHSLDVDIHIVLNDICFGAAHADDLFPFF------------LRHAKQIF 125
Query: 796 PQAEIRVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQ 849
P + + + L P + + A MQ + GP +GKT A+Q
Sbjct: 126 PVLDCKDDLRKISDLRIP-PNWYPDARA----MQRKIIFHSGPTNSGKTYHAIQ 174
>2chq_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATP ATP-binding,
nucleotide-binding; HET: ANP; 3.5A {Archaeoglobus
fulgidus} PDB: 2chv_A
Length = 319
Score = 32.7 bits (75), Expect = 0.61
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 226
L GPPGTGKT A+ + +L+ +
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFI 72
Score = 32.7 bits (75), Expect = 0.61
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 864
L GPPGTGKT A+ + +L+ +
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFI 72
>2chg_A Replication factor C small subunit; DNA-binding protein, DNA
replication, clamp loader, AAA+ ATPase, ATP-binding,
nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus
fulgidus}
Length = 226
Score = 32.2 bits (74), Expect = 0.66
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 226
L GPPGTGKT A+ + +L+ +
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFI 72
Score = 32.2 bits (74), Expect = 0.66
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 864
L GPPGTGKT A+ + +L+ +
Sbjct: 42 LFSGPPGTGKTATAIALARDLFGENWRDNFI 72
>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET:
DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11
PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*
Length = 296
Score = 32.2 bits (74), Expect = 0.85
Identities = 8/38 (21%), Positives = 12/38 (31%), Gaps = 1/38 (2%)
Query: 818 FHEIEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNL 854
I G + G + +V G GK+ Q
Sbjct: 22 CTGINDKTLGARGGEVIMVTSGSGMGKSTFVRQQALQW 59
Score = 30.3 bits (69), Expect = 3.2
Identities = 7/30 (23%), Positives = 11/30 (36%), Gaps = 1/30 (3%)
Query: 188 AGMQPG-LTLVVGPPGTGKTDVAVQIISNL 216
G + G + +V G GK+ Q
Sbjct: 30 LGARGGEVIMVTSGSGMGKSTFVRQQALQW 59
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 31.8 bits (73), Expect = 0.97
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 189 GMQPG-LTLVVGPPGTGKTDVAVQI 212
G PG LT V GP +GKT +A+Q
Sbjct: 16 GFAPGVLTQVYGPYASGKTTLALQT 40
Score = 31.8 bits (73), Expect = 0.97
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 1/25 (4%)
Query: 827 GMQPG-LTLVVGPPGTGKTDVAVQI 850
G PG LT V GP +GKT +A+Q
Sbjct: 16 GFAPGVLTQVYGPYASGKTTLALQT 40
>2c9o_A RUVB-like 1; hexameric helicase, AAA+-ATPase, ATP-binding,
chromatin regulator, growth regulation, hydrolase,
nuclear protein, DNA recombination; HET: ADP; 2.2A {Homo
sapiens} PDB: 2xsz_A*
Length = 456
Score = 32.3 bits (73), Expect = 0.99
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 183 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISN 215
+E I++ G L+ GPPGTGKT +A I+
Sbjct: 53 VELIKSKKMAGRAVLLAGPPGTGKTALA-LAIAQ 85
Score = 32.3 bits (73), Expect = 0.99
Identities = 14/34 (41%), Positives = 20/34 (58%), Gaps = 2/34 (5%)
Query: 821 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISN 853
+E I++ G L+ GPPGTGKT +A I+
Sbjct: 53 VELIKSKKMAGRAVLLAGPPGTGKTALA-LAIAQ 85
>3u4q_B ATP-dependent helicase/deoxyribonuclease subunit; helicase,
nuclease, double strand DNA repair, protein-DNA CO
hydrolase-DNA complex; HET: DNA; 2.80A {Bacillus
subtilis} PDB: 3u44_B*
Length = 1166
Score = 32.0 bits (72), Expect = 1.2
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 193 GLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQA 234
G +VG G+GKT + + I + P + +I +Q
Sbjct: 2 GAEFLVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQM 43
Score = 32.0 bits (72), Expect = 1.2
Identities = 11/42 (26%), Positives = 19/42 (45%)
Query: 831 GLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQA 872
G +VG G+GKT + + I + P + +I +Q
Sbjct: 2 GAEFLVGRSGSGKTKLIINSIQDELRRAPFGKPIIFLVPDQM 43
>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis,
nucleotide binding binding, cytoplasm,
nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium
tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A*
2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A*
2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A*
3avo_A* 3avq_A*
Length = 312
Score = 31.8 bits (72), Expect = 1.2
Identities = 12/51 (23%), Positives = 18/51 (35%)
Query: 818 FHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 868
E + P + V G GK+ A + + L H R +VT
Sbjct: 78 LGEPQQNPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTT 128
Score = 30.6 bits (69), Expect = 2.5
Identities = 11/49 (22%), Positives = 18/49 (36%)
Query: 182 QIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 230
+ + P + V G GK+ A + + L H R +VT
Sbjct: 80 EPQQNPDRPVPFIIGVAGSVAVGKSTTARVLQALLARWDHHPRVDLVTT 128
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 32.0 bits (73), Expect = 1.2
Identities = 18/106 (16%), Positives = 38/106 (35%), Gaps = 19/106 (17%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISL----DVDERHL 252
P G GKT + +L+ +R ++ ++ + Q E I V +L
Sbjct: 76 ATAPTGVGKTSFG--LAMSLFLALKGKRCYVIFPTSLLVIQAAETIRKYAEKAGVGTENL 133
Query: 253 LRLGHG-------EEALETEKDF------SRYGRVNYVLAKRLDLL 285
+ HG E ++ ++F +++ +Y D +
Sbjct: 134 IGYYHGRIPKREKENFMQNLRNFKIVITTTQFLSKHYRELGHFDFI 179
>1gzs_B SOPE; toxin/cell cycle, complex (toxin/cell cycle protein), SOPE,
CDC42, salmonella typhimurium, GEF, toxin, lipoprotein;
2.3A {Salmonella typhimurium} SCOP: a.168.1.1 PDB:
1r9k_A 1r6e_A
Length = 165
Score = 30.6 bits (68), Expect = 1.4
Identities = 24/90 (26%), Positives = 39/90 (43%), Gaps = 8/90 (8%)
Query: 822 EAIRAGMQPGLTL--VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLF-E 878
EA + PG T V P G G +IS+ +P + + QA +++ E
Sbjct: 71 EAAKNAGLPGTTKNDVFTPSGAGANPFITPLISSANSKYPR---MFINQHQQASFKIYAE 127
Query: 879 KIISLDVDERHLLHKKYRITPRYLLLAIKN 908
KII +V L ++ TP+ L ++N
Sbjct: 128 KIIMTEVAP--LFNECAMPTPQQFQLILEN 155
Score = 30.2 bits (67), Expect = 2.0
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 6/77 (7%)
Query: 174 NTIPFTPTQIEAIRAGMQPGLTL--VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 231
N PF EA + PG T V P G G +IS+ +P + +
Sbjct: 61 NIAPFLQEIGEAAKNAGLPGTTKNDVFTPSGAGANPFITPLISSANSKYPR---MFINQH 117
Query: 232 NQALNQLF-EKIISLDV 247
QA +++ EKII +V
Sbjct: 118 QQASFKIYAEKIIMTEV 134
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP:
a.80.1.1 c.37.1.20
Length = 327
Score = 31.6 bits (72), Expect = 1.5
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 226
L GPPG GKT A+ + L+ L
Sbjct: 50 LFAGPPGVGKTTAALALARELFGENWRHNFL 80
Score = 31.6 bits (72), Expect = 1.5
Identities = 11/31 (35%), Positives = 14/31 (45%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTL 864
L GPPG GKT A+ + L+ L
Sbjct: 50 LFAGPPGVGKTTAALALARELFGENWRHNFL 80
>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta
protein, structural genomics, PSI-2, protein structure
initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A
Length = 322
Score = 31.3 bits (72), Expect = 1.5
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 8/33 (24%)
Query: 190 MQPGLTLVVGPPGTGKTDVAVQ--------IIS 214
M+ L +VGP GKT +V +IS
Sbjct: 1 MKEKLVAIVGPTAVGKTKTSVMLAKRLNGEVIS 33
Score = 31.3 bits (72), Expect = 1.5
Identities = 11/33 (33%), Positives = 15/33 (45%), Gaps = 8/33 (24%)
Query: 828 MQPGLTLVVGPPGTGKTDVAVQ--------IIS 852
M+ L +VGP GKT +V +IS
Sbjct: 1 MKEKLVAIVGPTAVGKTKTSVMLAKRLNGEVIS 33
>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM:
PF02562, ST genomics, PSI-2, protein structure
initiative; 2.35A {Corynebacterium glutamicum atcc
13032}
Length = 208
Score = 31.0 bits (71), Expect = 1.5
Identities = 11/34 (32%), Positives = 17/34 (50%)
Query: 177 PFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAV 210
P T Q + A + +GP G+GKT +A+
Sbjct: 7 PKTLGQKHYVDAIDTNTIVFGLGPAGSGKTYLAM 40
Score = 29.5 bits (67), Expect = 5.0
Identities = 14/49 (28%), Positives = 20/49 (40%), Gaps = 13/49 (26%)
Query: 800 IRVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAV 848
IR KT V +AI + +GP G+GKT +A+
Sbjct: 5 IRPKTLGQKHYV----------DAIDTNT---IVFGLGPAGSGKTYLAM 40
>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 = 30.3 bits (67), Expect = 1.6
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 15/42 (35%)
Query: 286 QEVERLQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATV 327
Q +++LQ SL + Y ++A LA AT+
Sbjct: 20 QALKKLQASLKL-----YADDSA------PALA----IKATM 46
Score = 30.3 bits (67), Expect = 1.6
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 15/42 (35%)
Query: 536 QEVERLQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATV 577
Q +++LQ SL + Y ++A LA AT+
Sbjct: 20 QALKKLQASLKL-----YADDSA------PALA----IKATM 46
Score = 30.3 bits (67), Expect = 1.6
Identities = 11/42 (26%), Positives = 18/42 (42%), Gaps = 15/42 (35%)
Query: 1006 QEVERLQKSLDVSGDVAYTCETAGHFFLYQVLARWEKFLATV 1047
Q +++LQ SL + Y ++A LA AT+
Sbjct: 20 QALKKLQASLKL-----YADDSA------PALA----IKATM 46
Score = 28.4 bits (62), Expect = 7.3
Identities = 14/43 (32%), Positives = 17/43 (39%), Gaps = 17/43 (39%)
Query: 871 QALNQLFEKIISLDVDERHLLHKKYR--ITPRYLLLAIKNDVE 911
QAL +L + SL K Y P LAIK +E
Sbjct: 20 QALKKL-QA--SL---------KLYADDSAPA---LAIKATME 47
>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A
{Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB:
2cea_A* 3kds_E*
Length = 476
Score = 31.4 bits (72), Expect = 1.6
Identities = 10/11 (90%), Positives = 11/11 (100%)
Query: 196 LVVGPPGTGKT 206
L+VGPPGTGKT
Sbjct: 53 LLVGPPGTGKT 63
Score = 31.4 bits (72), Expect = 1.6
Identities = 10/11 (90%), Positives = 11/11 (100%)
Query: 834 LVVGPPGTGKT 844
L+VGPPGTGKT
Sbjct: 53 LLVGPPGTGKT 63
>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET:
ADP; 3.90A {Thermus thermophilus}
Length = 499
Score = 31.4 bits (72), Expect = 1.6
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 196 LVVGPPGTGKT 206
L+VGPPG GKT
Sbjct: 68 LLVGPPGVGKT 78
Score = 31.4 bits (72), Expect = 1.6
Identities = 9/11 (81%), Positives = 10/11 (90%)
Query: 834 LVVGPPGTGKT 844
L+VGPPG GKT
Sbjct: 68 LLVGPPGVGKT 78
>2w58_A DNAI, primosome component (helicase loader); ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.50A
{Geobacillus kaustophilus HTA426}
Length = 202
Score = 30.8 bits (70), Expect = 1.8
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 196 LVVGPPGTGKTDVAVQI--------ISNLYHNFPH-QRTLIVTHSNQALNQLFEKIISLD 246
+ G G GKT + I +S+L P R L + +Q +N+ + I +
Sbjct: 58 YLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIKKVP 117
Query: 247 V 247
V
Sbjct: 118 V 118
Score = 30.8 bits (70), Expect = 1.8
Identities = 15/61 (24%), Positives = 25/61 (40%), Gaps = 9/61 (14%)
Query: 834 LVVGPPGTGKTDVAVQI--------ISNLYHNFPH-QRTLIVTHSNQALNQLFEKIISLD 884
+ G G GKT + I +S+L P R L + +Q +N+ + I +
Sbjct: 58 YLHGSFGVGKTYLLAAIANELAKRNVSSLIVYVPELFRELKHSLQDQTMNEKLDYIKKVP 117
Query: 885 V 885
V
Sbjct: 118 V 118
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 31.7 bits (71), Expect = 1.9
Identities = 26/127 (20%), Positives = 39/127 (30%), Gaps = 21/127 (16%)
Query: 132 TEEEENEDEDVEMENKDGKPIITVE---------------PHVIPSRGPYLFNEPRKNTI 176
E D + N + + P+ + T
Sbjct: 24 QEASREVDASKGLTNSETLQVEQDGKVRLSHQVRHQVALPPNYDYTPIAEHKRVNEARTY 83
Query: 177 PFT--PTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQA 234
PFT P Q AI + LV GKT VA I + +++ +I T +A
Sbjct: 84 PFTLDPFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAI---AQSLKNKQRVIYTSPIKA 140
Query: 235 L-NQLFE 240
L NQ +
Sbjct: 141 LSNQKYR 147
>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding,
cell CELL division, hydrolase, membrane, metal-binding;
3.30A {Helicobacter pylori} PDB: 2r65_A*
Length = 268
Score = 30.7 bits (70), Expect = 2.0
Identities = 11/14 (78%), Positives = 13/14 (92%)
Query: 196 LVVGPPGTGKTDVA 209
L+VGPPGTGKT +A
Sbjct: 48 LLVGPPGTGKTLLA 61
Score = 30.7 bits (70), Expect = 2.0
Identities = 11/14 (78%), Positives = 13/14 (92%)
Query: 834 LVVGPPGTGKTDVA 847
L+VGPPGTGKT +A
Sbjct: 48 LLVGPPGTGKTLLA 61
>3pvs_A Replication-associated recombination protein A; maintenance of
genome stability Pro recombination; 2.50A {Escherichia
coli}
Length = 447
Score = 31.0 bits (71), Expect = 2.2
Identities = 10/17 (58%), Positives = 14/17 (82%), Gaps = 1/17 (5%)
Query: 199 GPPGTGKTDVAVQIISN 215
GPPGTGKT +A ++I+
Sbjct: 57 GPPGTGKTTLA-EVIAR 72
Score = 31.0 bits (71), Expect = 2.2
Identities = 10/17 (58%), Positives = 14/17 (82%), Gaps = 1/17 (5%)
Query: 837 GPPGTGKTDVAVQIISN 853
GPPGTGKT +A ++I+
Sbjct: 57 GPPGTGKTTLA-EVIAR 72
>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins
(A/B), protein binding, transferase, phosphotransferase;
HET: ADP; 1.76A {Homo sapiens} PDB: 3iik_A 3iil_A*
3iim_A* 1rkb_A
Length = 180
Score = 30.4 bits (68), Expect = 2.2
Identities = 12/59 (20%), Positives = 23/59 (38%), Gaps = 2/59 (3%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLR 254
L+ G PG GKT + ++ S + + Q + E+ +DE ++
Sbjct: 15 LLTGTPGVGKTTLGKELASKS--GLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVVD 71
Score = 29.6 bits (66), Expect = 3.8
Identities = 12/58 (20%), Positives = 23/58 (39%), Gaps = 2/58 (3%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLL 891
L+ G PG GKT + ++ S + + Q + E+ +DE ++
Sbjct: 15 LLTGTPGVGKTTLGKELASKS--GLKYINVGDLAREEQLYDGYDEEYDCPILDEDRVV 70
>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase,
antibiotic resistance, phosphorylation, mononucleoti
binding fold; HET: ATP; 2.50A {Streptomyces venezuelae}
SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A*
1qhy_A*
Length = 178
Score = 30.1 bits (67), Expect = 2.2
Identities = 12/80 (15%), Positives = 25/80 (31%)
Query: 828 MQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDE 887
M + ++ G GK+ + + S L + + + Q E I D D
Sbjct: 1 MTTRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEAMPLKMQSAEGGIEFDADG 60
Query: 888 RHLLHKKYRITPRYLLLAIK 907
+ ++R +
Sbjct: 61 GVSIGPEFRALEGAWAEGVV 80
Score = 28.2 bits (62), Expect = 9.8
Identities = 6/42 (14%), Positives = 15/42 (35%)
Query: 190 MQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHS 231
M + ++ G GK+ + + S L + + +
Sbjct: 1 MTTRMIILNGGSSAGKSGIVRCLQSVLPEPWLAFGVDSLIEA 42
>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics,
structural G consortium, SGC, ATP-binding,
nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo
sapiens}
Length = 262
Score = 30.7 bits (70), Expect = 2.3
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 196 LVVGPPGTGKTDVA 209
L++GPPG GKT +A
Sbjct: 43 LLLGPPGCGKTLLA 56
Score = 30.7 bits (70), Expect = 2.3
Identities = 9/14 (64%), Positives = 12/14 (85%)
Query: 834 LVVGPPGTGKTDVA 847
L++GPPG GKT +A
Sbjct: 43 LLLGPPGCGKTLLA 56
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 31.2 bits (71), Expect = 2.4
Identities = 12/100 (12%), Positives = 30/100 (30%), Gaps = 6/100 (6%)
Query: 183 IEAIRAGM-QPGLTLVVGPPGTGKT----DVAVQIISNLYHNFPHQRTLIVTHSNQALNQ 237
+E I+ Q L++G PGTGK+ +A + + + + +
Sbjct: 50 VEVIKTAANQKRHVLLIGEPGTGKSMLGQAMAELLPTETLEDILVFPNPEDENMPRIKTV 109
Query: 238 LFEKIISLDVDERHLLRLGHGEEALETEKDFSRYGRVNYV 277
+ + R + ++ + +
Sbjct: 110 PACQGRRIVEKYREKAKSQESVKSSNMRLKSTVL-VPKLL 148
Score = 30.8 bits (70), Expect = 3.1
Identities = 10/28 (35%), Positives = 16/28 (57%), Gaps = 1/28 (3%)
Query: 821 IEAIRAGM-QPGLTLVVGPPGTGKTDVA 847
+E I+ Q L++G PGTGK+ +
Sbjct: 50 VEVIKTAANQKRHVLLIGEPGTGKSMLG 77
>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB:
1iy0_A* 1iy1_A*
Length = 254
Score = 30.4 bits (69), Expect = 2.8
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 196 LVVGPPGTGKTDVA 209
L+VGPPG GKT +A
Sbjct: 53 LLVGPPGVGKTHLA 66
Score = 30.4 bits (69), Expect = 2.8
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 834 LVVGPPGTGKTDVA 847
L+VGPPG GKT +A
Sbjct: 53 LLVGPPGVGKTHLA 66
>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A
{Escherichia coli} SCOP: c.37.1.20
Length = 257
Score = 30.4 bits (69), Expect = 3.0
Identities = 11/14 (78%), Positives = 13/14 (92%)
Query: 196 LVVGPPGTGKTDVA 209
L+VGPPGTGKT +A
Sbjct: 49 LMVGPPGTGKTLLA 62
Score = 30.4 bits (69), Expect = 3.0
Identities = 11/14 (78%), Positives = 13/14 (92%)
Query: 834 LVVGPPGTGKTDVA 847
L+VGPPGTGKT +A
Sbjct: 49 LMVGPPGTGKTLLA 62
>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase;
3.20A {Thermus thermophilus} SCOP: c.37.1.20
Length = 278
Score = 30.4 bits (69), Expect = 3.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 196 LVVGPPGTGKTDVA 209
L+VGPPG GKT +A
Sbjct: 77 LLVGPPGVGKTHLA 90
Score = 30.4 bits (69), Expect = 3.0
Identities = 10/14 (71%), Positives = 12/14 (85%)
Query: 834 LVVGPPGTGKTDVA 847
L+VGPPG GKT +A
Sbjct: 77 LLVGPPGVGKTHLA 90
>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain,
ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus}
SCOP: c.37.1.20 PDB: 1nsf_A*
Length = 272
Score = 30.1 bits (68), Expect = 3.2
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 196 LVVGPPGTGKTDVAVQI 212
L+ GPP +GKT +A +I
Sbjct: 68 LLEGPPHSGKTALAAKI 84
Score = 30.1 bits (68), Expect = 3.2
Identities = 9/17 (52%), Positives = 13/17 (76%)
Query: 834 LVVGPPGTGKTDVAVQI 850
L+ GPP +GKT +A +I
Sbjct: 68 LLEGPPHSGKTALAAKI 84
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 30.6 bits (69), Expect = 3.3
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 195 TLVVGPPGTGKTDVAVQIISNL 216
LV G GTGK+ + ++
Sbjct: 56 LLVNGATGTGKSVLLRELAYTG 77
Score = 30.6 bits (69), Expect = 3.3
Identities = 7/22 (31%), Positives = 11/22 (50%)
Query: 833 TLVVGPPGTGKTDVAVQIISNL 854
LV G GTGK+ + ++
Sbjct: 56 LLVNGATGTGKSVLLRELAYTG 77
>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable
holliday junction DNA helicase; HET: ADP; 2.69A
{Campylobacter jejuni subsp}
Length = 338
Score = 30.2 bits (69), Expect = 3.7
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 195 TLVVGPPGTGKTDVAVQIISN 215
L GP G GKT +A IIS
Sbjct: 58 ILFSGPAGLGKTTLA-NIISY 77
Score = 30.2 bits (69), Expect = 3.7
Identities = 11/21 (52%), Positives = 12/21 (57%), Gaps = 1/21 (4%)
Query: 833 TLVVGPPGTGKTDVAVQIISN 853
L GP G GKT +A IIS
Sbjct: 58 ILFSGPAGLGKTTLA-NIISY 77
>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL
helix motif, transcription regulator; 3.20A
{Streptococcus pneumoniae}
Length = 253
Score = 29.9 bits (66), Expect = 4.0
Identities = 29/196 (14%), Positives = 56/196 (28%), Gaps = 49/196 (25%)
Query: 183 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKI 242
++ QP L+ G G GKT T + I
Sbjct: 23 TRGKKSSKQPIAILLGGQSGAGKT----------------------TIHRIKQKEFQGNI 60
Query: 243 ISLDVDE--------RHLLRLGHGEEALETEKDFSRYG--RVNYVLAKRLDLLQEVERLQ 292
+ +D D L + + T+ + V + + +LL +E
Sbjct: 61 VIIDGDSFRSQHPHYLELQQEYGKDSVEYTKDFAGKMVESLVTKLSSLGYNLL--IEGTL 118
Query: 293 KSLDVSGDVAYTCETAGH----FFLYQ--------VLARWEKFLATVRPSDGKTVPVKTI 340
+++DV A + G+ + L R+E+ P+ + P +
Sbjct: 119 RTVDVPKKTAQLLKNKGYEVQLALIATKPELSYLSTLIRYEELYIIN-PNQARATPKEHH 177
Query: 341 KTEFPFHGFFENAPKP 356
+ +N K
Sbjct: 178 DFI--VNHLVDNTRKL 191
Score = 29.1 bits (64), Expect = 6.7
Identities = 9/38 (23%), Positives = 13/38 (34%)
Query: 821 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNF 858
++ QP L+ G G GKT + N
Sbjct: 23 TRGKKSSKQPIAILLGGQSGAGKTTIHRIKQKEFQGNI 60
>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 = 4.3
Identities = 17/94 (18%), Positives = 29/94 (30%), Gaps = 14/94 (14%)
Query: 169 NEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQI---------ISNLYHN 219
N + + + GLT V G PG GKT +AV I + +
Sbjct: 16 NVSQNRALLTIRVFVHNFNPEEGKGLTFV-GSPGVGKTHLAVATLKAIYEKKGIRGYFFD 74
Query: 220 FPH-QRTLIVTHSNQALNQLFEKIISLDV---DE 249
L + + +++ V D+
Sbjct: 75 TKDLIFRLKHLMDEGKDTKFLKTVLNSPVLVLDD 108
Score = 28.5 bits (64), Expect = 7.2
Identities = 16/80 (20%), Positives = 26/80 (32%), Gaps = 14/80 (17%)
Query: 821 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQI---------ISNLYHNFPH-QRTLIVTHSN 870
+ GLT V G PG GKT +AV I + + L
Sbjct: 30 VHNFNPEEGKGLTFV-GSPGVGKTHLAVATLKAIYEKKGIRGYFFDTKDLIFRLKHLMDE 88
Query: 871 QALNQLFEKIISLDV---DE 887
+ + +++ V D+
Sbjct: 89 GKDTKFLKTVLNSPVLVLDD 108
>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase,
winged-helix domain, ATP hydrolysis, walker A, walker B,
sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga
maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A*
1in8_A* 1in7_A* 1j7k_A*
Length = 334
Score = 29.8 bits (68), Expect = 4.4
Identities = 11/21 (52%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 195 TLVVGPPGTGKTDVAVQIISN 215
L+ GPPG GKT +A II++
Sbjct: 54 VLLAGPPGLGKTTLA-HIIAS 73
Score = 29.8 bits (68), Expect = 4.4
Identities = 11/21 (52%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 833 TLVVGPPGTGKTDVAVQIISN 853
L+ GPPG GKT +A II++
Sbjct: 54 VLLAGPPGLGKTTLA-HIIAS 73
>1sxj_A Activator 1 95 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 516
Score = 30.2 bits (68), Expect = 4.5
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 196 LVVGPPGTGKT 206
++ GPPG GKT
Sbjct: 81 MLYGPPGIGKT 91
Score = 30.2 bits (68), Expect = 4.5
Identities = 7/11 (63%), Positives = 9/11 (81%)
Query: 834 LVVGPPGTGKT 844
++ GPPG GKT
Sbjct: 81 MLYGPPGIGKT 91
>1hqc_A RUVB; extended AAA-ATPase domain, complex with nucleotide,
hydrolase; HET: ADE; 3.20A {Thermus thermophilus} SCOP:
a.4.5.11 c.37.1.20 PDB: 1ixs_B* 1ixr_C*
Length = 324
Score = 29.8 bits (68), Expect = 4.6
Identities = 10/21 (47%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 195 TLVVGPPGTGKTDVAVQIISN 215
L+ GPPG GKT +A +I++
Sbjct: 41 LLLFGPPGLGKTTLA-HVIAH 60
Score = 29.8 bits (68), Expect = 4.6
Identities = 10/21 (47%), Positives = 15/21 (71%), Gaps = 1/21 (4%)
Query: 833 TLVVGPPGTGKTDVAVQIISN 853
L+ GPPG GKT +A +I++
Sbjct: 41 LLLFGPPGLGKTTLA-HVIAH 60
>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A
{Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*
Length = 308
Score = 29.9 bits (67), Expect = 4.7
Identities = 18/115 (15%), Positives = 32/115 (27%), Gaps = 13/115 (11%)
Query: 173 KNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH-- 230
Q P + + G GK+ A + + L H+R ++T
Sbjct: 61 NLRRQAVLEQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDG 120
Query: 231 ---SNQALNQLFEKII-----SLDVD--ERHLLRLGHGEEALET-EKDFSRYGRV 274
NQ L + S D+ + + L G + Y +
Sbjct: 121 FLHPNQVLKERGLMKKKGFPESYDMHRLVKFVSDLKSGVPNVTAPVYSHLIYDVI 175
Score = 29.1 bits (65), Expect = 7.4
Identities = 9/50 (18%), Positives = 18/50 (36%)
Query: 819 HEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTH 868
+ P + + G GK+ A + + L H+R ++T
Sbjct: 69 EQFLGTNGQRIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITT 118
>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function;
HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*
Length = 359
Score = 30.0 bits (67), Expect = 4.8
Identities = 15/89 (16%), Positives = 32/89 (35%), Gaps = 13/89 (14%)
Query: 834 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLHK 893
++VG PG+GK+ +A ++ + + L++ I D + +
Sbjct: 28 ILVGSPGSGKSTIAEELCQIINEKYH-----------TFLSEHPNVIEVNDRLKPMVNLV 76
Query: 894 K--YRITPRYLLLAIKNDVELSQLLSDVT 920
+ P + I+N + DV
Sbjct: 77 DSLKTLQPNKVAEMIENQGLFKDHVEDVN 105
Score = 29.7 bits (66), Expect = 5.5
Identities = 8/65 (12%), Positives = 22/65 (33%)
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERHLLRL 255
++VG PG+GK+ +A ++ + + + + + ++
Sbjct: 28 ILVGSPGSGKSTIAEELCQIINEKYHTFLSEHPNVIEVNDRLKPMVNLVDSLKTLQPNKV 87
Query: 256 GHGEE 260
E
Sbjct: 88 AEMIE 92
>2j5w_A Ceruloplasmin, ferroxidase; oxidoreductase, plasma protein, copper
transport, copper, transport, polymorphism, glycoprotein,
multi-copper oxidase; HET: NAG; 2.80A {Homo sapiens}
SCOP: b.6.1.3 b.6.1.3 b.6.1.3 b.6.1.3 b.6.1.3 PDB:
1kcw_A*
Length = 1065
Score = 30.3 bits (67), Expect = 4.9
Identities = 20/186 (10%), Positives = 45/186 (24%), Gaps = 26/186 (13%)
Query: 675 IIEDGPEPRPVLPGDTRTFRVMLDCNQYKEDLDNVA---------QGNEDVYETFNVLMR 725
+ + P LPG+T T+ + D+ +D+Y +
Sbjct: 839 VQTESSTVTPTLPGETLTYVWKIPERSGAGTEDSACIPWAYYSTVDQVKDLYSGLIGPLI 898
Query: 726 RKPKENNFKAVLETIRDLMNTECVVPDWLHDIILGYGDPGAAHYTEMPNEIATMDFNDTF 785
+ + ++ + Y D Y++ P ++ D
Sbjct: 899 VCRRPYLKVFNPRRKLEFA----LLFLVFDENESWYLDDNIKTYSDHPEKVNKDDEEFIE 954
Query: 786 LNMDHLRS--SFPQAE-----------IRVKTDNPTKLVPPFKLTFHEIEAIRAGMQPGL 832
N H + F + + + H + G+
Sbjct: 955 SNKMHAINGRMFGNLQGLTMHVGDEVNWYLMGMGNEIDLHTVHFHGHSFQYKHRGVYSSD 1014
Query: 833 TLVVGP 838
+ P
Sbjct: 1015 VFDIFP 1020
>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR
complex, HMR, HML, TELO AAA+ domain, structural,
nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}
Length = 318
Score = 29.5 bits (65), Expect = 5.3
Identities = 5/53 (9%), Positives = 13/53 (24%), Gaps = 7/53 (13%)
Query: 171 PRKNTIPFTPTQIEAIRA-------GMQPGLTLVVGPPGTGKTDVAVQIISNL 216
++ + I Q L + + K + ++ L
Sbjct: 17 QKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQLVNDVMDEL 69
Score = 29.5 bits (65), Expect = 5.7
Identities = 10/68 (14%), Positives = 19/68 (27%), Gaps = 9/68 (13%)
Query: 796 PQAEIRVKTDNPTKLVPPFKLTF--HEIEAIRA-------GMQPGLTLVVGPPGTGKTDV 846
P A+I ++ L L + I Q L + + K +
Sbjct: 2 PNADINLEESIRESLQKRELLKSQVEDFTRIFLPIYDSLMSSQNKLFYITNADDSTKFQL 61
Query: 847 AVQIISNL 854
++ L
Sbjct: 62 VNDVMDEL 69
>2qen_A Walker-type ATPase; unknown function; HET: ADP; 2.25A {Pyrococcus
abyssi}
Length = 350
Score = 29.7 bits (66), Expect = 5.3
Identities = 16/110 (14%), Positives = 36/110 (32%), Gaps = 1/110 (0%)
Query: 183 IEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEK 241
+ ++ LTL++G GK+ + ++ R L + +L ++
Sbjct: 21 SRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIKE 80
Query: 242 IISLDVDERHLLRLGHGEEALETEKDFSRYGRVNYVLAKRLDLLQEVERL 291
+ S + L+ R + V + DL +E+
Sbjct: 81 LQSTISPFQKFQSKFKISLNLKFLTLEPRKLSLREVFRELNDLGEELGEF 130
Score = 29.3 bits (65), Expect = 7.1
Identities = 11/64 (17%), Positives = 25/64 (39%), Gaps = 1/64 (1%)
Query: 820 EIEAIRAGMQPG-LTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFE 878
E + ++ LTL++G GK+ + ++ R L + +L +
Sbjct: 20 ESRKLEESLENYPLTLLLGIRRVGKSSLLRAFLNERPGILIDCRELYAERGHITREELIK 79
Query: 879 KIIS 882
++ S
Sbjct: 80 ELQS 83
>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding,
nucleoside kinase, nucleotide-binding; 2.50A {Homo
sapiens} PDB: 2uvq_A*
Length = 245
Score = 29.4 bits (66), Expect = 5.4
Identities = 25/106 (23%), Positives = 37/106 (34%), Gaps = 18/106 (16%)
Query: 189 GMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVT--------------HSNQA 234
M+P L V G +GK+ V +I+ L N QR V +A
Sbjct: 22 SMRPFLIGVSGGTASGKSTVCEKIMELLGQNEVEQRQRKVVILSQDRFYKVLTAEQKAKA 81
Query: 235 LNQL--FEKIISLDVD--ERHLLRLGHGEEALETEKDFSRYGRVNY 276
L F+ + D D R L + G+ DF + R+
Sbjct: 82 LKGQYNFDHPDAFDNDLMHRTLKNIVEGKTVEVPTYDFVTHSRLPE 127
>4fd7_A Putative arylalkylamine N-acetyltransferase 7; GNAT, COA binding;
1.80A {Aedes aegypti}
Length = 238
Score = 29.4 bits (65), Expect = 6.0
Identities = 9/78 (11%), Positives = 23/78 (29%), Gaps = 3/78 (3%)
Query: 67 DTRETLTKHFEPLTPLCVLKKRTEEEENEDEDVEMEN---KDANVLTTTPPRQAIIIGFL 123
D + +F + K ++ + V + D L I+G
Sbjct: 43 DAIRHMCDYFARDELMNQAKGLAKDLVAMGDVVALWKAMLPDRMSLVCFREGSDEIVGVN 102
Query: 124 LIQVLKKRTEEEENEDED 141
++ V + ++ +
Sbjct: 103 ILDVASRSDKDNAQFNSA 120
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 29.4 bits (66), Expect = 6.0
Identities = 16/89 (17%), Positives = 32/89 (35%), Gaps = 11/89 (12%)
Query: 169 NEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQI---------ISNLYHN 219
N R +E + Q GL + G G GK+ + + +S +
Sbjct: 130 NASRMEAFSAILDFVEQYPSAEQKGL-YLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLH 188
Query: 220 FPH-QRTLIVTHSNQALNQLFEKIISLDV 247
FP + SN ++ + + + ++ V
Sbjct: 189 FPSFAIDVKNAISNGSVKEEIDAVKNVPV 217
Score = 29.4 bits (66), Expect = 6.5
Identities = 14/75 (18%), Positives = 30/75 (40%), Gaps = 11/75 (14%)
Query: 821 IEAIRAGMQPGLTLVVGPPGTGKTDVAVQI---------ISNLYHNFPH-QRTLIVTHSN 870
+E + Q GL + G G GK+ + + +S +FP + SN
Sbjct: 144 VEQYPSAEQKGL-YLYGDMGIGKSYLLAAMAHELSEKKGVSTTLLHFPSFAIDVKNAISN 202
Query: 871 QALNQLFEKIISLDV 885
++ + + + ++ V
Sbjct: 203 GSVKEEIDAVKNVPV 217
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 29.8 bits (67), Expect = 6.0
Identities = 15/95 (15%), Positives = 32/95 (33%), Gaps = 16/95 (16%)
Query: 807 PTKLVPPFKLTFHEI-----EAIRAG--MQPGLT-----LVVGPPGTGKTDVAVQIISNL 854
P+ + ++ +I + I+ L ++ GPPG+GKT I++N
Sbjct: 1232 PSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKT----MIMNNA 1287
Query: 855 YHNFPHQRTLIVTHSNQALNQLFEKIISLDVDERH 889
N + + S + + +
Sbjct: 1288 LRNSSLYDVVGINFSKDTTTEHILSALHRHTNYVT 1322
>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A
{Homo sapiens}
Length = 274
Score = 29.5 bits (67), Expect = 6.1
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 187 RAGMQP--GLTLVVGPPGTGKTDVA 209
G+ G+ L+ GPPG GKT +A
Sbjct: 38 ALGLVTPAGV-LLAGPPGCGKTLLA 61
Score = 29.5 bits (67), Expect = 6.1
Identities = 11/25 (44%), Positives = 15/25 (60%), Gaps = 3/25 (12%)
Query: 825 RAGMQP--GLTLVVGPPGTGKTDVA 847
G+ G+ L+ GPPG GKT +A
Sbjct: 38 ALGLVTPAGV-LLAGPPGCGKTLLA 61
>2a11_A Ribonuclease III, RNAse III; nuclease domain, structural genomic
protein structure initiative; 2.10A {Mycobacterium
tuberculosis}
Length = 242
Score = 29.1 bits (66), Expect = 6.4
Identities = 13/58 (22%), Positives = 25/58 (43%), Gaps = 13/58 (22%)
Query: 212 IISN-LYHNFPHQ--------RTLIVTHSNQALNQLFEKIISLDVDERHLLRLGHGEE 260
I++ L+H P + R +V + QAL + ++ + + + LG GE
Sbjct: 56 TITDALFHRHPDRSEGDLAKLRASVV--NTQALADVARRLCAEGLGV--HVLLGRGEA 109
>3te4_A GH12636P, dopamine N acetyltransferase, isoform A; dopamine/acetyl
COA, N-acetyltransferase domain; HET: ACO; 1.46A
{Drosophila melanogaster}
Length = 215
Score = 29.0 bits (64), Expect = 6.4
Identities = 17/90 (18%), Positives = 34/90 (37%), Gaps = 2/90 (2%)
Query: 70 ETLTKHFEPLTPLCVLKKRTEEEENEDEDVEMENKDANVLTTTPPRQAIIIGFLLIQVLK 129
L F PL E +E E ++ + + + IIG L +++
Sbjct: 22 AMLKTFFFKDEPLNTFLDLGECKELEKYSLKPLPDNCSYKAVNKKGE--IIGVFLNGLMR 79
Query: 130 KRTEEEENEDEDVEMENKDGKPIITVEPHV 159
+ + ++ E E+ K I+++ HV
Sbjct: 80 RPSPDDVPEKAADSCEHPKFKKILSLMDHV 109
>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 = 29.8 bits (67), Expect = 6.6
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 187 RAGMQP--GLTLVVGPPGTGKTDVA 209
+ GM P G+ L GPPG GKT +A
Sbjct: 505 KFGMTPSKGV-LFYGPPGCGKTLLA 528
Score = 29.8 bits (67), Expect = 6.6
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 825 RAGMQP--GLTLVVGPPGTGKTDVA 847
+ GM P G+ L GPPG GKT +A
Sbjct: 505 KFGMTPSKGV-LFYGPPGCGKTLLA 528
>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD,
CDC48, ATP-binding, lipid-binding, nucle binding,
nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus
musculus}
Length = 301
Score = 29.1 bits (66), Expect = 6.7
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 187 RAGMQP--GLTLVVGPPGTGKTDVA 209
+ GM P G+ L GPPG GKT +A
Sbjct: 43 KFGMTPSKGV-LFYGPPGCGKTLLA 66
Score = 29.1 bits (66), Expect = 6.7
Identities = 13/25 (52%), Positives = 16/25 (64%), Gaps = 3/25 (12%)
Query: 825 RAGMQP--GLTLVVGPPGTGKTDVA 847
+ GM P G+ L GPPG GKT +A
Sbjct: 43 KFGMTPSKGV-LFYGPPGCGKTLLA 66
>1v5w_A DMC1, meiotic recombination protein DMC1/LIM15 homolog; DNA-binding
protein, ring protein, octamer, AAA ATPase; 3.20A {Homo
sapiens} SCOP: c.37.1.11 PDB: 2zjb_A
Length = 343
Score = 29.1 bits (65), Expect = 7.4
Identities = 21/147 (14%), Positives = 45/147 (30%), Gaps = 11/147 (7%)
Query: 86 KKRTEEEENEDEDVEMENKDANVLTTTPPRQAII-----IGFLLIQVLKKRTEEEENEDE 140
+ EE ++ E +D ++L A I +G I+ ++ T +
Sbjct: 7 DQVVAEEPGFQDEEESLFQDIDLLQKHGINVADIKKLKSVGICTIKGIQMTTRRALCNVK 66
Query: 141 DVEMENKDGKPIITVEPHVIPSRGPYLFNEPRKNTIPFTPTQI----EAIRAGMQPG-LT 195
+ D K + P ++ + T + + G++ +T
Sbjct: 67 GLSEAKVD-KIKEAANKLIEPGFLTAFEYSEKRKMVFHITTGSQEFDKLLGGGIESMAIT 125
Query: 196 LVVGPPGTGKTDVAVQIISNLYHNFPH 222
G TGKT ++ +
Sbjct: 126 EAFGEFRTGKTQLSHTLCVTAQLPGAG 152
>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP;
2.37A {Humulus lupulus}
Length = 339
Score = 29.1 bits (65), Expect = 7.4
Identities = 9/55 (16%), Positives = 21/55 (38%), Gaps = 3/55 (5%)
Query: 158 HVIPSRGPYLFNEPRKNTIPFTPTQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQI 212
H + + P T + + L +++G GTGK+ +++ +
Sbjct: 9 HHMDYASVAMAAAPTTTTTTNVSL---RRQRHRKEKLLVLMGATGTGKSRLSIDL 60
>1xjc_A MOBB protein homolog; structural genomics, midwest center for
structural GEN PSI, protein structure initiative, MCSG;
2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10
Length = 169
Score = 28.5 bits (63), Expect = 7.5
Identities = 7/45 (15%), Positives = 14/45 (31%)
Query: 197 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEK 241
VVG +GKT + + ++ T+ +
Sbjct: 9 VVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGV 53
Score = 28.5 bits (63), Expect = 7.5
Identities = 7/45 (15%), Positives = 14/45 (31%)
Query: 835 VVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEK 879
VVG +GKT + + ++ T+ +
Sbjct: 9 VVGYKHSGKTTLMEKWVAAAVREGWRVGTVKHHGHGGEPARPEGV 53
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 28.6 bits (63), Expect = 7.5
Identities = 11/66 (16%), Positives = 21/66 (31%), Gaps = 26/66 (39%)
Query: 86 KKRTEEEEN-----EDEDVEMENKDANVLTTTPPRQAIIIGFLLIQVLKKRTEEEENEDE 140
+ T+E E+ E++ ++ DA K E+E E
Sbjct: 78 DRLTQEPESIRKWREEQRKRLQELDAA---------------------SKVMEQEWREKA 116
Query: 141 DVEMEN 146
++E
Sbjct: 117 KKDLEE 122
>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function
initiative, EFI, STRU genomics, transferase; 1.60A
{Janibacter SP}
Length = 200
Score = 28.5 bits (63), Expect = 8.0
Identities = 16/74 (21%), Positives = 27/74 (36%), Gaps = 3/74 (4%)
Query: 181 TQIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFE 240
+++ G +V+G G+GKT +A + F HS + + +
Sbjct: 18 LYFQSMMTGEPTRHVVVMGVSGSGKTTIAHGVADETGLEFAEADAF---HSPENIATMQR 74
Query: 241 KIISLDVDERHLLR 254
I D D LR
Sbjct: 75 GIPLTDEDRWPWLR 88
>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein;
HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A*
1e32_A* 1s3s_A* 2pjh_B
Length = 489
Score = 29.4 bits (66), Expect = 8.3
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 3/25 (12%)
Query: 187 RAGMQP--GLTLVVGPPGTGKTDVA 209
G++P G+ L+ GPPGTGKT +A
Sbjct: 232 AIGVKPPRGI-LLYGPPGTGKTLIA 255
Score = 29.4 bits (66), Expect = 8.3
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 3/25 (12%)
Query: 825 RAGMQP--GLTLVVGPPGTGKTDVA 847
G++P G+ L+ GPPGTGKT +A
Sbjct: 232 AIGVKPPRGI-LLYGPPGTGKTLIA 255
>2vli_A Antibiotic resistance protein; transferase, tunicamycin,
phosphotransferase; 1.95A {Deinococcus radiodurans}
Length = 183
Score = 28.4 bits (63), Expect = 8.5
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 190 MQPGLTLVVGPPGTGKTDVA 209
M+ + + GP G GKT A
Sbjct: 3 MRSPIIWINGPFGVGKTHTA 22
Score = 28.4 bits (63), Expect = 8.5
Identities = 8/20 (40%), Positives = 11/20 (55%)
Query: 828 MQPGLTLVVGPPGTGKTDVA 847
M+ + + GP G GKT A
Sbjct: 3 MRSPIIWINGPFGVGKTHTA 22
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 29.4 bits (65), Expect = 8.7
Identities = 20/66 (30%), Positives = 25/66 (37%), Gaps = 4/66 (6%)
Query: 813 PFKLTFHEIEAIRAGMQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQA 872
PF+L + EA+ Q V GKT VA I + I T +A
Sbjct: 37 PFELDTFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAI---AMAHRNMTKTIYTSPIKA 93
Query: 873 L-NQLF 877
L NQ F
Sbjct: 94 LSNQKF 99
>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure
initiati YORK structural genomics research consortium,
nysgrc; 2.20A {Sinorhizobium meliloti}
Length = 202
Score = 28.5 bits (63), Expect = 9.1
Identities = 10/31 (32%), Positives = 15/31 (48%)
Query: 179 TPTQIEAIRAGMQPGLTLVVGPPGTGKTDVA 209
+ EA PG +V+G G+GK+ V
Sbjct: 5 IEYKSEAAAVRRFPGSIVVMGVSGSGKSSVG 35
>1kht_A Adenylate kinase; phosphotransferase, signaling protein,
transferase; HET: AMP; 2.50A {Methanococcus voltae}
SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A
Length = 192
Score = 28.5 bits (63), Expect = 9.8
Identities = 17/92 (18%), Positives = 34/92 (36%), Gaps = 3/92 (3%)
Query: 828 MQPGLTLVVGPPGTGKTDVAVQIISNLYHNFPHQRTLIVTHSNQALNQLFEKIISLDVDE 887
M+ + +V G PG G T + + NL +V+ + E+ + D D+
Sbjct: 1 MKNKVVVVTGVPGVGSTTSSQLAMDNL--RKEGVNYKMVSFGSVMFEVAKEENLVSDRDQ 58
Query: 888 -RHLLHKKYRITPRYLLLAIKNDVELSQLLSD 918
R + + + + I + S + D
Sbjct: 59 MRKMDPETQKRIQKMAGRKIAEMAKESPVAVD 90
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
0.320 0.137 0.402
Gapped
Lambda K H
0.267 0.0478 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 16,385,467
Number of extensions: 1037081
Number of successful extensions: 3069
Number of sequences better than 10.0: 1
Number of HSP's gapped: 3032
Number of HSP's successfully gapped: 258
Length of query: 1051
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 948
Effective length of database: 3,825,930
Effective search space: 3626981640
Effective search space used: 3626981640
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 (21.8 bits)
S2: 62 (28.3 bits)