RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy16215
(1041 letters)
>4ecq_A DNA polymerase ETA; transferase-DNA complex; HET: DNA DTP; 1.50A
{Homo sapiens} PDB: 3mr2_A* 3mr4_A* 3mr5_A* 3si8_A*
4dl2_A* 4dl3_A* 4dl4_A* 4dl5_A* 4dl6_A* 4dl7_A* 3mr3_A*
4ecr_A* 4ecs_A* 4ect_A* 4ecu_A* 4ecv_A* 4ecw_A* 4ecx_A*
4ecy_A* 4ecz_A* ...
Length = 435
Score = 410 bits (1056), Expect = e-134
Identities = 201/434 (46%), Positives = 273/434 (62%), Gaps = 16/434 (3%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
R++AL+DMDCF+ QVE + NP L KP AVVQY +WKGGGIIAV+YEAR GVTR M
Sbjct: 8 QDRVVALVDMDCFFVQVEQRQNPHLRNKPCAVVQYKSWKGGGIIAVSYEARAFGVTRSMW 67
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
D+AK+ CP++ L +V RGKA+++KYR A EV+ ++S F+ ++ERASIDEAY+DLT
Sbjct: 68 ADDAKKLCPDLLLAQVRESRGKANLTKYREASVEVMEIMSRFA-VIERASIDEAYVDLTS 126
Query: 122 VVHERMKSI--GHIAASQLSNTFVVGFGPD-------NNDEDARKAGVMEWLGQVYSDTD 172
V ER++ + I+A L +T++ G E RK G+ +WL + D
Sbjct: 127 AVQERLQKLQGQPISADLLPSTYIEGLPQGPTTAEETVQKEGMRKQGLFQWLDSLQID-- 184
Query: 173 TSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSI 232
T +L + VIVEE+RAA+ +T F CSAGI+HNKVLAKL CGL+KP +Q++
Sbjct: 185 ----NLTSPDLQLTVGAVIVEEMRAAIERETGFQCSAGISHNKVLAKLACGLNKPNRQTL 240
Query: 233 LPQSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASW 292
+ SV L++ + I+K+R LGGKLG V+E L M EL +F+ QLQSHF EK SW
Sbjct: 241 VSHGSVPQLFSQMPIRKIRSLGGKLGASVIEILGIEYMGELTQFTESQLQSHFGEKNGSW 300
Query: 293 LYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLT 352
LY + RGI+H+PV R + K+IGC K FPGKT LATR+ V W+ +LA E+ ERL D
Sbjct: 301 LYAMCRGIEHDPVKPRQLPKTIGCSKNFPGKTALATREQVQWWLLQLAQELEERLTKDRN 360
Query: 353 LNKRRAQLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTP 412
N R A L VS + D +++S R AL Y + + VI N++ ++ +P
Sbjct: 361 DNDRVATQLVVSIRVQGDKRLSSLRRCCALTRYDAHKMSHDAFTVIKNCNTSGIQTEWSP 420
Query: 413 PLLFLGLSASKFSP 426
PL L L A+KFS
Sbjct: 421 PLTMLFLCATKFSA 434
>3osn_A DNA polymerase IOTA; hoogsteen base PAIR, protein-DNA complex,
Y-family DNA polym translesion synthesis, nucleoside
triphosphate; HET: DNA DOC 6OG TTP; 1.90A {Homo sapiens}
PDB: 2dpj_A* 2fll_A* 2fln_A* 2flp_A* 3epg_A* 3epi_A*
2dpi_A* 3g6v_A* 3g6y_A* 3g6x_A* 3gv7_B* 3gv8_B* 3ngd_A*
3gv5_B* 3q8p_B* 3q8q_B* 3q8r_B* 3q8s_B* 3h4d_A* 3h4b_A*
...
Length = 420
Score = 361 bits (929), Expect = e-115
Identities = 111/441 (25%), Positives = 188/441 (42%), Gaps = 61/441 (13%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+SR+I +D+DCFY QVE NP L KPL V Q ++ NYEAR GV + M
Sbjct: 26 SSRVIVHVDLDCFYAQVEMISNPELKDKPLGVQQK-----YLVVTCNYEARKLGVKKLMN 80
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
+AK+ CP++ L D+++YR +V +L EFS +VER DE ++DLT+
Sbjct: 81 VRDAKEKCPQLVLVNGE------DLTRYREMSYKVTELLEEFSPVVERLGFDENFVDLTE 134
Query: 122 VVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+V +R++ + S ++ + V N D
Sbjct: 135 MVEKRLQQLQSDELSAVTVSGHVYNNQSINLLDVLH------------------------ 170
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSML 241
L + I E+R A+ ++ AG+A NK+LAKLV G+ KP +Q++L S L
Sbjct: 171 -IRLLVGSQIAAEMREAMYNQLGLTGCAGVASNKLLAKLVSGVFKPNQQTVLLPESCQHL 229
Query: 242 YANL-SIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGI 300
+L IK++ +G K + +E L +++ +L+ FS K L+ A + ++ G
Sbjct: 230 IHSLNHIKEIPGIGYKTA-KCLEALGINSVRDLQTFSPKILEKELGISVAQRIQKLSFGE 288
Query: 301 DHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLNKRRAQL 360
D+ PV +S F ++ + + I+EL + R+ D R+
Sbjct: 289 DNSPVILSGPPQSFSEEDSFKK---CSSEVEAKNKIEELLASLLNRVCQD----GRKPHT 341
Query: 361 LTV-----SFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSA------PPISD 409
+ + S + SR + S+ +Q + + V+ ++
Sbjct: 342 VRLIIRRYSSEKHY----GRESRQCPIPSHVIQKLGTGNYDVMTPMVDILMKLFRNMVNV 397
Query: 410 LTP-PLLFLGLSASKFSPLGS 429
P L L + L +
Sbjct: 398 KMPFHLTLLSVCFCNLKALNT 418
>3mfi_A DNA polymerase ETA; DNA damage, DNA repair, DNA replication, DNA
synthesis, NUCL binding, magnesium; HET: DNA DOC TTD
DTP; 1.76A {Saccharomyces cerevisiae} PDB: 3mfh_A*
3oha_A* 3ohb_A* 2r8j_A* 2r8k_A* 2wtf_A* 2xgp_A* 2xgq_A*
1jih_A*
Length = 520
Score = 316 bits (809), Expect = 6e-97
Identities = 100/497 (20%), Positives = 187/497 (37%), Gaps = 80/497 (16%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
+ IA IDM+ F+ QVE P+ VQ+ IIAV+Y AR G++R
Sbjct: 29 SLACIAHIDMNAFFAQVEQMRCGLSKEDPVVCVQW-----NSIIAVSYAARKYGISRMDT 83
Query: 62 GDEAKQHCPEIELCRVPSVR---------------------------GKADISKYRNAGR 94
EA + C + + K + YR R
Sbjct: 84 IQEALKKCSNLIPIHTAVFKKGEDFWQYHDGCGSWVQDPAKQISVEDHKVSLEPYRRESR 143
Query: 95 EVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGH----------IAASQLSNTFVV 144
+ +A+ ++VERASIDE ++DL + + A S + F+
Sbjct: 144 KALAIFKWACDLVERASIDEVFLDLGRICFNMLMFDNEYELTGDLKLKDALSNIREAFIG 203
Query: 145 GFGP--DNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSK 202
G + K +++ G V++ L+ + +D LA+ + + IR ++
Sbjct: 204 GNYDINSHLPLIPEKIKSLKFEGDVFNPEGRDLITDWDDVI-LALGSQVCKGIRDSIKDI 262
Query: 203 TQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVS--MLYANLSIKKVRHLGGKLGDE 260
+ S G++ K + KL KP Q+I+ + + I LGG LG E
Sbjct: 263 LGYTTSCGLSSTKNVCKLASNYKKPDAQTIVKNDCLLDFLDCGKFEITSFWTLGGVLGKE 322
Query: 261 VVETLQCS--------------TMLELEKFSLKQLQSHF------------EEKTASWLY 294
+++ L +L++F +++ A L+
Sbjct: 323 LIDVLDLPHENSIKHIRETWPDNAGQLKEFLDAKVKQSDYDRSTSNIDPLKTADLAEKLF 382
Query: 295 YIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLN 354
++RG P+++R V KS+ K GK+C + D W++ E+ R++D
Sbjct: 383 KLSRGRYGLPLSSRPVVKSMMSNKNLRGKSCN-SIVDCISWLEVFCAELTSRIQDLEQEY 441
Query: 355 KRRAQLLTVSFTQETDGKVNSCSRSIALASYKL----QDIVEVSMQVINKTNSAPPISDL 410
+ TVS + +T +S +A + ++++V ++ + + +
Sbjct: 442 NKIVIPRTVSISLKTKSY-EVYRKSGPVAYKGINFQSHELLKVGIKFVTDLD-IKGKNKS 499
Query: 411 TPPLLFLGLSASKFSPL 427
PL L ++ + F +
Sbjct: 500 YYPLTKLSMTITNFDII 516
>1t94_A Polymerase (DNA directed) kappa; replication, DNA repair, Y-family
DNA polymerase, translesion DNA synthesis, lesion
bypass; 2.40A {Homo sapiens} SCOP: d.240.1.1 e.8.1.7
PDB: 2oh2_A* 2w7o_A* 2w7p_A* 3hed_A* 3in5_A*
Length = 459
Score = 258 bits (661), Expect = 1e-76
Identities = 102/457 (22%), Positives = 177/457 (38%), Gaps = 53/457 (11%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
S I IDMD FY VE + NP L KP+AV + NY AR GV M
Sbjct: 32 LSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM-----SMLSTSNYHARRFGVRAAMP 86
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
G AK+ CP++ + + KYR +EV +L+++ S+DEAY+++T
Sbjct: 87 GFIAKRLCPQLIIV-------PPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITK 139
Query: 122 VVHERMKSIGHIAASQLSNTFVVG-----------------FGPDNNDEDARKAGVMEWL 164
+ ER + V P +E
Sbjct: 140 HLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDP 199
Query: 165 GQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGL 224
QV + + A +V+EIR + KT SAGIA N +LAK+
Sbjct: 200 FQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDK 259
Query: 225 HKPQKQSILP--QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQ 282
+KP Q + + +V +L I+KV + GK+ +++++ L T EL + L
Sbjct: 260 NKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELYQ-QRALLS 317
Query: 283 SHFEEKTASWLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADE 342
F E + + +I+ G+ + KS+ + F + ++ QEL E
Sbjct: 318 LLFSETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFSE---INKAEEQYSLCQELCSE 374
Query: 343 VCERLEDDLTLNKRRAQLLTV-----SFTQETDGKVNSCSRSIALASYKLQDIVEVSMQV 397
+ + L+ + + + +T+ +F +T + +++ ++I ++ ++
Sbjct: 375 LAQDLQK----ERLKGRTVTIKLKNVNFEVKTR------ASTVSSVVSTAEEIFAIAKEL 424
Query: 398 INKTNSAPPISDLTPPLLFLGLSASKFSPLGSHPSIQ 434
+ A L L +G+ S F Q
Sbjct: 425 LKTEIDADFPHPL--RLRLMGVRISSFPNEEDRKHQQ 459
>3pzp_A DNA polymerase kappa; DNA nucleotidyltransferase, DNA binding
nucleotide binding M binding, nucleus; HET: DNA TTD DTP;
3.34A {Homo sapiens}
Length = 517
Score = 244 bits (625), Expect = 5e-71
Identities = 100/452 (22%), Positives = 174/452 (38%), Gaps = 43/452 (9%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGGGIIAVNYEARHKGVTRHMR 61
S I IDMD FY VE + NP L KP+AV + NY AR GV M
Sbjct: 88 LSNTIVHIDMDAFYAAVEMRDNPELKDKPIAVGSM-----SMLSTSNYHARRFGVRAAMP 142
Query: 62 GDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTD 121
G AK+ CP++ + + KYR +EV +L+++ S+DEAY+++T
Sbjct: 143 GFIAKRLCPQLIIV-------PPNFDKYRAVSKEVKEILADYDPNFMAMSLDEAYLNITK 195
Query: 122 VVHERMKSIGHIAASQLSNTFVVG-----------------FGPDNNDEDARKAGVMEWL 164
+ ER + V P +E
Sbjct: 196 HLEERQNWPEDKRRYFIKMGSSVENDNPGKEVNKLSEHERSISPLLFEESPSDVQPPGDP 255
Query: 165 GQVYSDTDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGL 224
QV + + A +V+EIR + KT SAGIA N +LAK+
Sbjct: 256 FQVNFEEQNNPQILQNSVVFGTSAQEVVKEIRFRIEQKTTLTASAGIAPNTMLAKVCSDK 315
Query: 225 HKPQKQSILP--QSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQ 282
+KP Q + + +V +L I+KV + GK+ +++++ L T EL + L
Sbjct: 316 NKPNGQYQILPNRQAVMDFIKDLPIRKVSGI-GKVTEKMLKALGIITCTELYQ-QRALLS 373
Query: 283 SHFEEKTASWLYYIARGIDHEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADE 342
F E + + +I+ G+ + KS+ + F + ++ QEL E
Sbjct: 374 LLFSETSWHYFLHISLGLGSTHLTRDGERKSMSVERTFSE---INKAEEQYSLCQELCSE 430
Query: 343 VCERLEDDLTLNKRRAQLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTN 402
+ + L+ + K R + + + +V + + +++ ++I ++ +++
Sbjct: 431 LAQDLQKERL--KGRTVTIKLKN---VNFEVKTRASTVSSVVSTAEEIFAIAKELLKTE- 484
Query: 403 SAPPISDLTPPLLFLGLSASKFSPLGSHPSIQ 434
L +G+ S F Q
Sbjct: 485 -IDADFPHPLRLRLMGVRISSFPNEEDRKHQQ 515
>2aq4_A DNA repair protein REV1; polymerase, PAD, N-digit, G-loop,
transferase; HET: DNA DOC DCP; 2.32A {Saccharomyces
cerevisiae} PDB: 3bjy_A* 3osp_A*
Length = 434
Score = 169 bits (430), Expect = 2e-45
Identities = 75/460 (16%), Positives = 132/460 (28%), Gaps = 109/460 (23%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPS------LHGKPLAVVQYNTWKGG-GIIA-VNYEARH 53
+ II ID DCF+ V S P+ V IA NY AR
Sbjct: 50 DTYIIFHIDFDCFFATVAYLCRSSSFSACDFKRDPIVV----CHGTKNSDIASCNYVARS 105
Query: 54 KGVTRHMRGDEAKQHCPE-IELCRVPSVRGKADISKYRNAGREVIAVLSEFS--NIVERA 110
G+ M +A++ P I+L +P +++ + L + N++
Sbjct: 106 YGIKNGMWVSQAEKMLPNGIKLISLPY-----TFEQFQLKSEAFYSTLKRLNIFNLILPI 160
Query: 111 SIDEAYIDLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSD 170
SIDEA
Sbjct: 161 SIDEAVC---VR------------------------------------------------ 169
Query: 171 TDTSLMENTEDFQELAIAGVIVEEIRAAVLSKTQF-HCSAGIAHNKVLAKLVCGLHKPQK 229
+ NT + + EEIR + T S G + + VLA+L + KP
Sbjct: 170 IIPDNIHNTNT-----LNARLCEEIRQEIFQGTNGCTVSIGCSDSLVLARLALKMAKPNG 224
Query: 230 QS-ILPQSSVSMLYANLSIKKV----RHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSH 284
+ + +++ + + +L + + + +++L L++
Sbjct: 225 YNITFKSNLSEEFWSSFKLDDLPGVGHSTLSRLESTFDSPHSLNDLRK--RYTLDALKAS 282
Query: 285 FEEKTASWLYYIARGIDHEPVNARLVS-------KSIGCCKRFPGKTCLATRQDVSHWIQ 337
K ++ +G D E L KS+ + V +I+
Sbjct: 283 VGSKLGMKIHLALQGQDDEESLKILYDPKEVLQRKSLSIDINWG--IRFKNITQVDLFIE 340
Query: 338 ELADEVCERLEDD--------LTLNKRRAQLLTVSFTQETDGKVNSCSRSIALASY--KL 387
+ E+L + L L +R G+ +S SRS L +
Sbjct: 341 RGCQYLLEKLNEINKTTSQITLKLMRRCKDAPIEPPKYMGMGRCDSFSRSSRLGIPTNEF 400
Query: 388 QDIVEVSMQVINKTNSAPPISDLTPPLLFLGLSASKFSPL 427
I + P L L L +K +
Sbjct: 401 GIIATEMKSLYRTLGCPP------MELRGLALQFNKLVDV 434
>1jx4_A DNA polymerase IV (family Y); protein-DNA complex, Y-family,
transferase-D complex; HET: DNA MSE ADI; 1.70A
{Sulfolobus solfataricus} SCOP: d.240.1.1 e.8.1.7 PDB:
1jxl_A* 1n48_A* 1n56_A* 1ryr_A* 1rys_A* 1s0m_A* 1s0n_A*
1s0o_A* 1s10_A* 1s97_A* 1s9f_A* 2ia6_A* 2ibk_A* 2r8g_A*
2r8h_A* 2r8i_A* 2rdj_A* 3fds_A* 3m9m_B* 3m9n_B* ...
Length = 352
Score = 160 bits (406), Expect = 3e-43
Identities = 91/441 (20%), Positives = 155/441 (35%), Gaps = 100/441 (22%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGG-GIIAV-NYEARHKGVTRHMRG 62
I+ +D D FY QVE LNPSL GKP+ V ++ G +A NYEAR GV +
Sbjct: 2 IVLFVDFDYFYAQVEEVLNPSLKGKPVVVCVFSGRFEDSGAVATANYEARKFGVKAGIPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
EAK+ P + Y+ ++ +L + ++
Sbjct: 62 VEAKKILPNAVYLPM-------RKEVYQQVSSRIMNLLR----------------EYSEK 98
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
+ E SI DE A Y D ++
Sbjct: 99 I-EIA-SI---------------------DE----A---------YLDI-------SDKV 115
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
++ A + EI+ +L K + + GI+ NKV AK+ + KP ++ V L
Sbjct: 116 RDYREAYNLGLEIKNKILEKEKITVTVGISKNKVFAKIAADMAKPNGIKVIDDEEVKRLI 175
Query: 243 ANLSIKKVRHLG-GKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGID 301
L I V G G + E ++ L + +++ +L+ E A +L +AR
Sbjct: 176 RELDIADVP--GIGNITAEKLKKLGINKLVDTLSIEFDKLKGMIGEAKAKYLISLARDEY 233
Query: 302 HEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDLTLNKRRAQLL 361
+EP+ R V KSIG +++ ++ +E +L+ KR + +
Sbjct: 234 NEPIRTR-VRKSIGRIVTMK--RNSRNLEEIKPYLFRAIEESYYKLD------KRIPKAI 284
Query: 362 TV-----SFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTPPLLF 416
V + R+ K E + + + +
Sbjct: 285 HVVAVTEDLDIVS------RGRTFPHGISKETAYSESVKLLQKI------LEEDERKIRR 332
Query: 417 LGLSASKFSPLGSHPSIQQFF 437
+G+ SKF + +FF
Sbjct: 333 IGVRFSKFIE---AIGLDKFF 350
>3bq0_A POL IV, DBH, DNA polymerase IV; Y-family, lesion bypass; HET: DNA;
2.60A {Sulfolobus acidocaldarius} SCOP: d.240.1.1
e.8.1.7 PDB: 3bq1_A* 3bq2_A* 1k1q_A 1k1s_A
Length = 354
Score = 158 bits (401), Expect = 2e-42
Identities = 77/447 (17%), Positives = 140/447 (31%), Gaps = 110/447 (24%)
Query: 5 IIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGG-GIIAV-NYEARHKGVTRHMRG 62
I+ +D D F+ QVE LNP GKPL V Y+ G +A NYEAR GV M
Sbjct: 2 IVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKAGMPI 61
Query: 63 DEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
+A Q P + Y ++ +L++ D
Sbjct: 62 IKAMQIAPSAIYVPM-------RKPIYEAFSNRIMNLLNKH----------------ADK 98
Query: 123 VHERMKSIGHIAASQLSNTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDF 182
+ E SI DE A Y D + E
Sbjct: 99 I-EVA-SI---------------------DE----A---------YLD----VTNKVEGN 118
Query: 183 QELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLY 242
E I + +I+ +L K + + G+A NK+LAK++ KP ++ + V
Sbjct: 119 FENGIE--LARKIKQEILEKEKITVTVGVAPNKILAKIIADKSKPNGLGVIRPTEVQDFL 176
Query: 243 ANLSIKKVRHLG-GKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGID 301
L I ++ G G + + L + ++ + +L+ + A +L +A+
Sbjct: 177 NELDIDEIP--GIGSVLARRLNELGIQKLRDILSKNYNELEKITGKAKALYLLKLAQNKY 234
Query: 302 HEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHW---IQELADEVCERLEDDLTLNKRRA 358
EPV + G P + + L + E K
Sbjct: 235 SEPVENK-SKIPHGRYLTLP--------YNTRDVKVILPYLKKAINEAYN------KVNG 279
Query: 359 QLLTVS-------FTQETDGKVNSCSRSIALASY-KLQDIVEVSMQVINKTNSAPPISDL 410
+ ++ + + + + +V+ ++ +
Sbjct: 280 IPMRITVIAIMEDLDILS--------KGKKFKHGISIDNAYKVAEDLLRELLVRDK---- 327
Query: 411 TPPLLFLGLSASKFSPLGSHPSIQQFF 437
+ +G+ + ++ FF
Sbjct: 328 RRNVRRIGVKLDNIII--NKTNLSDFF 352
>1im4_A DBH; DNA polymerase PALM, thumb, fingers, helix-hairpin-helix,
fidelity, processivity, transferase; 2.30A {Sulfolobus
solfataricus} SCOP: e.8.1.7
Length = 221
Score = 121 bits (307), Expect = 2e-31
Identities = 43/137 (31%), Positives = 64/137 (46%), Gaps = 9/137 (6%)
Query: 1 MTSRIIALIDMDCFYCQVECKLNPSLHGKPLAVVQYNTWKGG-GIIAV-NYEARHKGVTR 58
I+ +D D F+ QVE LNP GKPL V Y+ G +A NYEAR GV
Sbjct: 3 HHHHIVIFVDFDYFFAQVEEVLNPQYKGKPLVVCVYSGRTKTSGAVATANYEARKLGVKA 62
Query: 59 HMRGDEAKQHCPEIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYID 118
M +A Q P + Y ++ +L++ ++ +E ASIDEAY+D
Sbjct: 63 GMPIIKAMQIAPSAIYVPM-------RKPIYEAFSNRIMNLLNKHADKIEVASIDEAYLD 115
Query: 119 LTDVVHERMKSIGHIAA 135
+T+ V ++ +A
Sbjct: 116 VTNKVEGNFENGIELAR 132
>3gqc_A DNA repair protein REV1; protein-DNA complex, DNA damage, DNA
repair, DNA synthesis, binding, magnesium,
metal-binding; HET: DNA DOC DCP; 2.50A {Homo sapiens}
Length = 504
Score = 122 bits (308), Expect = 2e-29
Identities = 46/255 (18%), Positives = 93/255 (36%), Gaps = 19/255 (7%)
Query: 188 AGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSMLYANLSI 247
+R + +T+ S GI N +LA++ KP Q L V +
Sbjct: 258 PDEFANAVRMEIKDQTKCAASVGIGSNILLARMATRKAKPDGQYHLKPEEVDDFIRGQLV 317
Query: 248 KKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGIDHEPVNA 307
+ +G + + +L T +L+ ++ +LQ F KT LY RG+D PV
Sbjct: 318 TNLPGVGHSME-SKLASLGIKTCGDLQYMTMAKLQKEFGPKTGQMLYRFCRGLDDRPVRT 376
Query: 308 RLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLED----------DLTLNKRR 357
KS+ + ++ ++ L++E+ RLE + + K
Sbjct: 377 EKERKSVSAEINYG--IRFTQPKEAEAFLLSLSEEIQRRLEATGMKGKRLTLKIMVRKPG 434
Query: 358 AQLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTNSAPPISDLTPPLLFL 417
A + T F + + ++ A+ + I + + + + + +
Sbjct: 435 APVETAKFGGHGICDNIARTVTLDQATDNAKIIGKAMLNMFHTMKLNI------SDMRGV 488
Query: 418 GLSASKFSPLGSHPS 432
G+ ++ P +PS
Sbjct: 489 GIHVNQLVPTNLNPS 503
Score = 73.7 bits (181), Expect = 1e-13
Identities = 37/184 (20%), Positives = 61/184 (33%), Gaps = 58/184 (31%)
Query: 2 TSRIIALIDMDCFYCQVECKLNPSL----------------------------------- 26
I +DMDCF+ V + P L
Sbjct: 86 HQSCIMHVDMDCFFVSVGIRNRPDLKGKPVAVTSNRGTGRAPLRPGANPQLEWQYYQNKI 145
Query: 27 -HGKPLAVVQYNTWKGG--------------GIIA-VNYEARHKGVTRHMRGDEAKQHCP 70
GK + + W+ IA +YEAR G+ M AKQ CP
Sbjct: 146 LKGKAADIPDSSLWENPDSAQANGIDSVLSRAEIASCSYEARQLGIKNGMFFGHAKQLCP 205
Query: 71 EIELCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSI 130
++ D Y+ + + L+ +++ +E S DEA +D+T+++ E +
Sbjct: 206 NLQAVPY-------DFHAYKEVAQTLYETLASYTHNIEAVSCDEALVDITEILAETKLTP 258
Query: 131 GHIA 134
A
Sbjct: 259 DEFA 262
>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 = 75.1 bits (184), Expect = 1e-13
Identities = 102/573 (17%), Positives = 183/573 (31%), Gaps = 168/573 (29%)
Query: 132 HIAASQLSNTFVV-------GFGPDNNDEDARKAG-VMEWLGQVYSDTDTSLMENTEDFQ 183
ASQL F GF D DE A V ++LG V +SL+E ++ Q
Sbjct: 27 FFIASQLQEQFNKILPEPTEGFAAD--DEPTTPAELVGKFLGYV-----SSLVEPSKVGQ 79
Query: 184 ELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKP--QKQSIL-------- 233
+ + + E L H + AKL+ + + ++
Sbjct: 80 FDQVLNLCLTEFENCYLEGNDIHA--------LAAKLLQENDTTLVKTKELIKNYITARI 131
Query: 234 ------PQSSVSMLYANLSIKKVRHL----GGKLGDEVVETLQCSTMLELEKFSLKQLQS 283
+ S S L+ + + L GG Q +T + + ++L+
Sbjct: 132 MAKRPFDKKSNSALFRAVGEGNAQ-LVAIFGG----------QGNT----DDY-FEELRD 175
Query: 284 HFEEKTASWLY--Y---IARGID-HEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQ 337
LY Y + I + L+ ++ K F + ++ W++
Sbjct: 176 ---------LYQTYHVLVGDLIKFSAETLSELIRTTLDAEKVFT-QGL-----NILEWLE 220
Query: 338 ELADEVCERLEDDLTLNKRRAQLLT--VSF-----TQ------------ETDGKVNSCSR 378
++ + D LL+ +S Q T G++ S +
Sbjct: 221 NPSN----TPDKDY--------LLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLK 268
Query: 379 SIALASYKLQDIVEVSMQVINKTNSAP---PISDLTPPLLF-LGLSASK-FSPLGSHPSI 433
A+ Q + V+ I +T+S +LF +G+ + + PSI
Sbjct: 269 G---ATGHSQGL--VTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYPNTSLPPSI 323
Query: 434 QQFFKPQDH--PEPMTSEHSSLPEQSTNHDSKKRDKTLLNFNQQTPFQLALNRIERKLID 491
+ + P PM S +N ++ + N P A ++E L++
Sbjct: 324 LEDSLENNEGVPSPMLS--------ISNLTQEQVQDYVNKTNSHLP---AGKQVEISLVN 372
Query: 492 KFKSHI-----ESKLDSCNANVDKLVIGDISEQIKNIAAENVRK------YLRT----HS 536
K+ + +S L N + K +Q + +E RK +L HS
Sbjct: 373 GAKNLVVSGPPQS-LYGLNLTLRKAKAPSGLDQSRIPFSE--RKLKFSNRFLPVASPFHS 429
Query: 537 KD-SNASDEDEESFNDKLVSIERE-----VEESV-GKDIEES----LKNVSDVLFNEKV- 584
ASD + VS + V ++ G D+ + + D + V
Sbjct: 430 HLLVPASDLINKDLVKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSISERIVDCIIRLPVK 489
Query: 585 -ENLTMENKKSIKNECLSP-VSSKSKDLTNENL 615
E T I P +S LT+ N
Sbjct: 490 WETTTQFKATHIL--DFGPGGASGLGVLTHRNK 520
Score = 63.9 bits (155), Expect = 3e-10
Identities = 86/575 (14%), Positives = 150/575 (26%), Gaps = 240/575 (41%)
Query: 518 EQIKNIAAENVRKYLRTHSKDSNASDEDEESFNDKLVS-----IEREVEESVGKDIEESL 572
Q++ E K L + + A+D DE + +LV + VE S ++ L
Sbjct: 31 SQLQ----EQFNKILPEPT-EGFAAD-DEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVL 84
Query: 573 KNVSDVLFNEKVENLTMENKKSIKNECLSPVSSKSKDLTNENLGHTFETLPSPILTSDRD 632
+ E FE + L D
Sbjct: 85 N----LCLTE------------------------------------FE---NCYL-EGND 100
Query: 633 IHTSTPCRRKGSKNVFENKTLKSKEELPLVKRVDNTIPNSFEFITYTRRQVKPENISN-- 690
IH L + + LVK I N +R ++ S
Sbjct: 101 IHALA-------------AKLLQENDTTLVKT-KELIKNYITARIMAKRPFDKKSNSALF 146
Query: 691 -----------------GNNSDNKTDDE-----DSPQVITKPIGSISMRKYETTRQSHLN 728
GN D +E + V+ + S ++ L+
Sbjct: 147 RAVGEGNAQLVAIFGGQGNTDD--YFEELRDLYQTYHVLVGDLIKFSAETLSELIRTTLD 204
Query: 729 KPKLFADFPTTSQG-------NNPDTHEPPNSSNKRGKSYSF-------FENYLRRKKER 774
K+F +QG NP P+ S +Y+
Sbjct: 205 AEKVF------TQGLNILEWLENPSN--TPDKDYLLSIPISCPLIGVIQLAHYVV----- 251
Query: 775 ERLNSKSCKDETLTHGQVHPSV-------------------------ETNTHTILE---- 805
+ K T G++ + + +
Sbjct: 252 ------TAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFF 305
Query: 806 ------------EVTSSI--ETVDNGSIETNAMTRIRDDIHLARENNTKFLADPIKDTES 851
+ SI ++++N + M I + L +E + D + T S
Sbjct: 306 IGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSISN---LTQE----QVQDYVNKTNS 358
Query: 852 TGPSN---VIS---TESNEVI-----------------------DQTKI----R------ 872
P+ IS N V+ DQ++I R
Sbjct: 359 HLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSN 418
Query: 873 ---DVSSSDHSQ-MTSATKADFIKESGDPNNEMCKSTVQFHSNSI-----NKGNGNADVS 923
V+S HS + A+ D I + ++ K+ V F++ I + +G +D+
Sbjct: 419 RFLPVASPFHSHLLVPAS--DLINK------DLVKNNVSFNAKDIQIPVYDTFDG-SDLR 469
Query: 924 PMDTVDIINTIAD---SSTVD-SAINIADPTKIIC 954
+ I I D V T I+
Sbjct: 470 VLSG-SISERIVDCIIRLPVKWETTTQFKATHILD 503
Score = 46.6 bits (110), Expect = 4e-05
Identities = 51/280 (18%), Positives = 82/280 (29%), Gaps = 101/280 (36%)
Query: 23 NPSLHGKPLAVVQYNTWKGGGIIAVNY---------------EARHKGVTRHM-----RG 62
NP L + + + G I NY E K + H R
Sbjct: 1668 NP----VNLTI--HFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS 1721
Query: 63 DEAK-------QHCP-----EIELCRVPSVRGKADISKYRNAGREVIAVLS--EFSNIVE 108
++ Q P E +G AG S E++ +
Sbjct: 1722 EKGLLSATQFTQ--PALTLMEKAAFEDLKSKGLIPADAT-FAG------HSLGEYAALAS 1772
Query: 109 RA---SIDEAYIDLTDVVHERMKSIGHIAASQ---LSNTFVVGFGPDNNDEDARKAGVME 162
A SI+ L +VV R ++ SN ++ P + +
Sbjct: 1773 LADVMSIE----SLVEVVFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQY 1828
Query: 163 WLGQVYSDTDTSLME----NTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLA 218
+ +V T L+E N E+ Q AG ++RA L
Sbjct: 1829 VVERVGKRTG-WLVEIVNYNVENQQ-YVAAG----DLRA-------------------LD 1863
Query: 219 KLVCGLHKPQKQSI----LPQSSVSMLYANLSIKKVR-HL 253
+ L+ + Q I L +S LS+++V HL
Sbjct: 1864 TVTNVLNFIKLQKIDIIELQKS--------LSLEEVEGHL 1895
Score = 45.8 bits (108), Expect = 9e-05
Identities = 65/384 (16%), Positives = 113/384 (29%), Gaps = 123/384 (32%)
Query: 78 PSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDVVHERMKSIGHIAASQ 137
+R D K G ++ L D+ Y+ + S I Q
Sbjct: 197 ELIRTTLDAEKVFTQGLNILEWLEN----PSNTP-DKDYLLSIPI------SCPLIGVIQ 245
Query: 138 LSNTFVV----GFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTEDFQELAIAGVIVE 193
L++ V GF P G++ S + T Q L A I
Sbjct: 246 LAHYVVTAKLLGFTP----------------GELRSYLKGA----TGHSQGLVTAVAI-- 283
Query: 194 EIRAAVLSKTQFHCSAGIAHNKVLAKLV-CGLHKPQKQSILPQSSVSMLYANLSIKKVRH 252
A S F S K + L G+ P +S+ ++ + +
Sbjct: 284 ---AETDSWESFFVSV----RKAITVLFFIGVRC---YEAYPNTSLP---PSILEDSLEN 330
Query: 253 LGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEE-----KTASWLYYIARGIDHEPVNA 307
G S ML + + +Q+Q + + + I+ VN
Sbjct: 331 NEGVP----------SPMLSISNLTQEQVQDYVNKTNSHLPAGKQV-EISL------VNG 373
Query: 308 R---LVS---KS-IGCCKRF------PG----KTCLATRQDV-------------SHWIQ 337
+VS +S G G + + R+ SH +
Sbjct: 374 AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLV 433
Query: 338 ELADEVCERL-EDDLTLNKRRAQL-LTVSFTQETDGK-VNSCSRSIALASYKLQDIVE-- 392
+D + + L +++++ N + + V T DG + S SI + IV+
Sbjct: 434 PASDLINKDLVKNNVSFNA--KDIQIPVYDT--FDGSDLRVLSGSI------SERIVDCI 483
Query: 393 VSMQVIN--KTNSAPP--ISDLTP 412
+ + V T I D P
Sbjct: 484 IRLPV-KWETTTQFKATHILDFGP 506
Score = 42.7 bits (100), Expect = 7e-04
Identities = 42/258 (16%), Positives = 81/258 (31%), Gaps = 69/258 (26%)
Query: 777 LNSKSCKDETLTHGQVHPS--VETNTH---TIL-EEVTSSIETVDNGSIETNAMTRIRDD 830
+++ S + TL+HG + V T + + L E+ + G + T
Sbjct: 1 MDAYSTRPLTLSHGSLEHVLLVPTASFFIASQLQEQFNKILPEPTEGFAADDEPT---TP 57
Query: 831 IHLARENNTKFL---ADPIKDTESTGPSNVISTESNEVIDQTKIR--DV-----SSSDHS 880
L KFL + ++ ++ V++ E + + D+ +
Sbjct: 58 AELV----GKFLGYVSSLVEPSKVGQFDQVLNLCLTE-FENCYLEGNDIHALAAKLLQEN 112
Query: 881 QMTSATKADFIK-------ESGDPNNEMCKSTVQFHSNSINK--------GNGNA----- 920
T + IK + P ++ S + F + G GN
Sbjct: 113 DTTLVKTKELIKNYITARIMAKRPFDKKSNSAL-FRAVGEGNAQLVAIFGGQGNTDDYFE 171
Query: 921 ------DVSPMDTVDIINTIAD--SSTVDSAINIADPTKIICDKCSQPIDINELQEH--- 969
+ D+I A+ S + + D K+ +Q ++I E E+
Sbjct: 172 ELRDLYQTYHVLVGDLIKFSAETLSELIRTT---LDAEKV----FTQGLNILEWLENPSN 224
Query: 970 ---QDYHFALELSTTSEP 984
+DY L S P
Sbjct: 225 TPDKDY---LLSIPISCP 239
Score = 40.8 bits (95), Expect = 0.003
Identities = 41/287 (14%), Positives = 74/287 (25%), Gaps = 106/287 (36%)
Query: 235 QSS--VSM---LYANLSI-KKV-----RHLGGKLGDEVVETLQCSTMLELEKFSL----- 278
Q S M LY + V H G FS+
Sbjct: 1624 QGSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYG-----------------FSILDIVI 1666
Query: 279 ---KQLQSHFEEKTASWLY--YIA--------RGIDHEPVNARLVSKSIGCCKRFPGKTC 325
L HF + + Y A + E + + S R
Sbjct: 1667 NNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLL 1726
Query: 326 LATR--Q------DVSHWIQELADE--------------------VCE----RLEDDLTL 353
AT+ Q + + + ++L + +E + +
Sbjct: 1727 SATQFTQPALTLMEKAAF-EDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEV 1785
Query: 354 NKRRAQLLTVSFTQETDGK-------VNSCSRSIALASYKLQDIVE---------VS--- 394
R + V+ ++ G+ +N + + + LQ +VE V
Sbjct: 1786 VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVN 1845
Query: 395 -----MQ-VINKTNSAPPISDLTPPLLFLGLSASKFSPLGSHPSIQQ 435
Q V A + +T L F+ L L S+++
Sbjct: 1846 YNVENQQYVAAGDLRA--LDTVTNVLNFIKLQKIDIIELQKSLSLEE 1890
Score = 37.7 bits (87), Expect = 0.027
Identities = 56/304 (18%), Positives = 99/304 (32%), Gaps = 94/304 (30%)
Query: 778 NSKSCK---DETLTHGQVHPSVETNTHTILEEVTSS--IETVDNG-----SIETNAMTRI 827
SK+ + + H + +T +IL+ V ++ T+ G I N I
Sbjct: 1638 TSKAAQDVWNRADNHFK-----DTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMI 1692
Query: 828 RDDIHLARENNTKFLADPIKDTESTGPSNVISTESNEVIDQTKIRDVSSSDHSQ--MTSA 885
+ I + K + E + ++ ++ T+ +Q +T
Sbjct: 1693 FETIVDGKLKTEKIFKEI---NEHS--TSYTFRSEKGLLSATQ--------FTQPALTLM 1739
Query: 886 TKADF--IKESG-DPNNEMCKSTVQF--HSNSINKGNG-------NADV-SPMDTVDII- 931
KA F +K G P + F HS + G ADV S V+++
Sbjct: 1740 EKAAFEDLKSKGLIPADAT------FAGHS--L----GEYAALASLADVMSIESLVEVVF 1787
Query: 932 ---NTIADSSTVDS---------AINIADPTKIICDKCSQPIDINELQEHQDYHFALELS 979
T+ + D AIN + Q + + + + + +E+
Sbjct: 1788 YRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYV-VERVGKRTG--WLVEIV 1844
Query: 980 TTSEPPNSTSNISNS---SSSSKILNKKSSKRGRPSKLNSFKNSENFKKLKTIDQFFKPK 1036
N N+ N ++ G L++ N NF KL+ ID K
Sbjct: 1845 ------NY--NVENQQYVAA------------GDLRALDTVTNVLNFIKLQKIDIIELQK 1884
Query: 1037 SQSL 1040
S SL
Sbjct: 1885 SLSL 1888
>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 = 67.2 bits (163), Expect = 2e-11
Identities = 107/635 (16%), Positives = 189/635 (29%), Gaps = 191/635 (30%)
Query: 385 YKLQDIVEVSMQVINKTNSAPPISDLTPPLL-------FLGLSASK------FSPLGSHP 431
Y+ +DI+ V + D+ +L + + F L S
Sbjct: 16 YQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQ 75
Query: 432 S--IQQFFKPQDHP------EPMTSEHSSLPEQSTNHDSKKRDKTLLNFNQQTPF-QLAL 482
+Q+F + P+ +E P T ++RD+ L N NQ F + +
Sbjct: 76 EEMVQKFVEEVLRINYKFLMSPIKTEQRQ-PSMMTRMYIEQRDR-LYNDNQ--VFAKYNV 131
Query: 483 NRIERKLIDKFKSHIESKLDSCNANVDKLVIG---------------DISEQIK---NIA 524
+R++ K + + +L NV L+ G Q K I
Sbjct: 132 SRLQ--PYLKLRQALL-ELRP-AKNV--LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF 185
Query: 525 AENVRKYLRT-----------HSKDSNASDEDEESFNDKLVSIEREVEES---VGKDIEE 570
N++ + D N + + S N KL + E K E
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYEN 245
Query: 571 SLKNVSDVLFNEKVENLTMENKKSIK---NECLSPVSSKSKDLTNENLGHTFETLPSPIL 627
L + +V +N K+ C ++++ K +T+ L
Sbjct: 246 CLLVLLNV-----------QNAKAWNAFNLSCKILLTTRFKQVTD-------------FL 281
Query: 628 TSDRDIHTSTPCRRKG-----SKNVFENKTLKSKEELPLVKRVDNTIPNSFEFITYTRRQ 682
++ H S K++ ++LP + V T P I
Sbjct: 282 SAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP--REVLTTNPRRLSII------ 333
Query: 683 VKPENISNGNN-SDN-KTDDEDSPQVITKPIGSISMRKYETTRQSHLN--KP----KLFA 734
E+I +G DN K + D K T +S LN +P K+F
Sbjct: 334 --AESIRDGLATWDNWKHVNCD---------------KLTTIIESSLNVLEPAEYRKMFD 376
Query: 735 D---FPTTSQGNNPDTHEPPNS-----SNKRGKSYSFFENYLRRKKERERLNSKSCKDET 786
FP P H P + N L + L K K+ T
Sbjct: 377 RLSVFP-------PSAHIPTILLSLIWFDVIKSDVMVVVNKLHKY----SLVEKQPKEST 425
Query: 787 LT-HG-----QVHPSVETNTHTILEEVTSSIETVDNGSIETNAMTRIRDD------I--H 832
++ +V E H + + + +T D+ + + D I H
Sbjct: 426 ISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS-----DDLIPPYLDQYFYSHIGHH 480
Query: 833 LARENNT-------------KFLADPIKDTESTGPSNVISTESNEVIDQTK----IRDVS 875
L + +FL I+ + N + N + I D +
Sbjct: 481 LKNIEHPERMTLFRMVFLDFRFLEQKIRHDST--AWNASGSILNTLQQLKFYKPYICD-N 537
Query: 876 SSDHSQMTSATKADFIKESGDPNNEMCKST--VQF 908
+ ++ +A DF+ + N K T ++
Sbjct: 538 DPKYERLVNAIL-DFLPKIE-ENLICSKYTDLLRI 570
Score = 60.6 bits (146), Expect = 2e-09
Identities = 80/581 (13%), Positives = 162/581 (27%), Gaps = 171/581 (29%)
Query: 168 YSDTDTSLMENT-----EDFQELAIAGV---IVEEIRAAVLSKTQFHCSAGIAHNKVLAK 219
+ D +T + F++ + V+++ ++LSK +
Sbjct: 6 HMDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTL 65
Query: 220 LVCGLHKPQKQSILPQSSVSMLYANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLK 279
+ +++ ++ + +L N L + E + + M ++ L
Sbjct: 66 RLFWTLLSKQEEMVQKFVEEVLRINYKF-----LMSPIKTEQRQPSMMTRMYIEQRDRLY 120
Query: 280 QLQSHFEEKTASWLYYIARGIDHEPVNA------RL-VSKSI------GCCKRFPGKTCL 326
F + Y ++R +P L +K++ G GKT +
Sbjct: 121 NDNQVFAK------YNVSR---LQPYLKLRQALLELRPAKNVLIDGVLGS-----GKTWV 166
Query: 327 A--TRQDVS---------HWIQELADEVCERLEDDLTLNKRRAQLLTVSFTQETDGKVN- 374
A W+ L + C E L + ++ + ++T +D N
Sbjct: 167 ALDVCLSYKVQCKMDFKIFWLN-LKN--CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNI 223
Query: 375 ---------SCSRSIALASYK-----LQDIVEVSMQVINK---------TNSAPPISDLT 411
R + Y+ L + V+ + + N T ++D
Sbjct: 224 KLRIHSIQAELRRLLKSKPYENCLLVLLN-VQ-NAKAWNAFNLSCKILLTTRFKQVTD-- 279
Query: 412 PPLLFLGLSASKFSPLGSHPSIQQFFKPQDHPEPMT-------SEHSSLPEQSTNHDSKK 464
FL + + H S+ E + LP + +
Sbjct: 280 ----FLSAATTT------HISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTN--- 326
Query: 465 RDKTLLNFNQQTPFQLALNRIERKLIDKFKSHIESKLDSCNANVDKL--VIGDISEQIKN 522
P +L++ I + D + ++ + N DKL +I + S +
Sbjct: 327 ------------PRRLSI--IAESIRD-GLATWDNWK---HVNCDKLTTII-ESS--LNV 365
Query: 523 IAAENVRKYLRTHS---KDSN------------ASDEDEESFNDKLVSIEREVEES-VGK 566
+ RK S ++ D +KL S V K
Sbjct: 366 LEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK------YSLVEK 419
Query: 567 DIEESLKNVSDVLF--NEKVENLTMENKKSI------KNECLSPVSSKSKD--------- 609
+ES ++ + K+EN ++ + K + D
Sbjct: 420 QPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGH 479
Query: 610 -LTNENLGHTFETLPSPILTSDRDI-----HTSTPCRRKGS 644
L N + R + H ST GS
Sbjct: 480 HLKNIEHPERMTLFRM-VFLDFRFLEQKIRHDSTAWNASGS 519
Score = 59.1 bits (142), Expect = 8e-09
Identities = 77/591 (13%), Positives = 172/591 (29%), Gaps = 179/591 (30%)
Query: 20 CKLNPS----LHGKPLAVVQYNTWKGGG--IIAVNYEARHKGVTRHMRG-----DEAKQH 68
+L P+ + G G G +A++ V M + +
Sbjct: 145 LELRPAKNVLIDGV----------LGSGKTWVALDV-CLSYKVQCKMDFKIFWLNLKNCN 193
Query: 69 CPE--IE----LCRVPSVRGKADISKYRNAGREVIAVLSEFSNIVERASIDEAYIDLTDV 122
PE +E L + N + ++ +E +++ + + L +V
Sbjct: 194 SPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNV 253
Query: 123 VHERMKSIGHIAASQLS-NTFVVGFGPDNNDEDARKAGVMEWLGQVYSDTDTSLMENTED 181
+ + A LS + R V ++L + T SL ++
Sbjct: 254 QNAK-----AWNAFNLSCKILLT----------TRFKQVTDFLS-AATTTHISLDHHSMT 297
Query: 182 FQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVCGLHKPQKQSILPQSSVSML 241
+E K+ + L + + P+ +S++
Sbjct: 298 LTP--------DE------VKSLL---LKYLDCRP-QDL-----PREVLTTNPR-RLSII 333
Query: 242 YANLSIKKVRHLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWLYYIARGID 301
++ + + + C + + + SL L+ E + + +
Sbjct: 334 AESIRDGLATW-------DNWKHVNCDKLTTIIESSLNVLEPA-EYRK----MFDRLSVF 381
Query: 302 HEPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQELADEVCERLEDDL---TLNKRRA 358
+ I P L+ W ++ + + L +L +++
Sbjct: 382 PPSAH-------I------PTIL-LSL-----IW-FDVIKSDVMVVVNKLHKYSLVEKQP 421
Query: 359 QLLTVSFTQETDGKVNSCSRSIALASYKLQDIVEVSMQVINKTN--SAPPISDLTPPLL- 415
+ T+S + S + + KL++ + +++ N DL PP L
Sbjct: 422 KESTIS--------IPSIYLELKV---KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLD 470
Query: 416 --FLGLSASKFSPLGSHPSIQQFFKPQDHPEPMTSEHSSLPEQSTNHDSKKRDKTLLNFN 473
F +S +G H K +HPE + L+F
Sbjct: 471 QYF-------YSHIGHH------LKNIEHPE----RMTLFR------------MVFLDFR 501
Query: 474 QQTPFQLALNRIERKLIDKFKSHIESKLDSCNANVDKLVIGDISEQIKNIAAENVRKYLR 533
F +E+K+ H + ++ + ++ L + ++ Y
Sbjct: 502 ----F------LEQKIR-----HDSTAWNASGSILNTL--------------QQLKFYKP 532
Query: 534 THSKDSNASDEDEESFNDKLVSIEREVEESVGKDI-EESLKNVSDVLFNEK 583
+ + + D L IE + S D+ +L + +F E
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAEDEAIFEEA 583
Score = 49.1 bits (116), Expect = 8e-06
Identities = 72/536 (13%), Positives = 143/536 (26%), Gaps = 212/536 (39%)
Query: 535 HSKDSNASDEDEESFNDKL-VSIEREVEESVGKDIEESLKNVSDVLFNEKVENLTMENKK 593
H D E + + D L V + V+ KD+++ K++
Sbjct: 5 HHMDFETG-EHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSI------------------ 45
Query: 594 SIKNECLSPVSSKSKDLTNENLGHTFETLPSPILTSDRDIHTSTPCRRKGSKNVFENKTL 653
L+ E + H + + R +F TL
Sbjct: 46 ----------------LSKEEIDHIIM-SKDAVSGTLR---------------LFW--TL 71
Query: 654 KSKEELPLVKR-VDNTIPNSFEFITYTRRQVKPENISNGNNSDNKTDDEDSPQVITKPIG 712
SK+E +V++ V+ + +++F+ +K E P
Sbjct: 72 LSKQE-EMVQKFVEEVLRINYKFLM---SPIKTEQRQ--------------------P-- 105
Query: 713 SISMRKYETTRQSHLNKPKLFADFPTTSQGNNPDTHEPPNSSNKRGKSYSFFENYLRRKK 772
S+ R Y R N ++FA + + R + Y L +
Sbjct: 106 SMMTRMYIEQRDRLYNDNQVFAKYNVS-----------------RLQPYLKLRQALLELR 148
Query: 773 ERER-------------LNSKSCKDET-----------LTHGQVHPSVETNTHTILEEVT 808
+ + C L + + T+LE +
Sbjct: 149 PAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCN-----SPETVLEMLQ 203
Query: 809 SSIETVD-NGSIETNAMTRIRDDIHLARENNTKFLADPIKDTESTGPSNVISTESNEVID 867
+ +D N + ++ + I+ IH + + L + ++ V+
Sbjct: 204 KLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSK------PYENCLL------VLL 251
Query: 868 QTKIRDVSSSDHSQMTSATKADFIKESGDPNNEMCKSTVQFHSNSINKGNGNADVSPMDT 927
+V ++ A F + + CK
Sbjct: 252 -----NVQNAKA------WNA-F-----NLS---CK------------------------ 267
Query: 928 VDIINTIADSSTVDSAINIADPTKIICDKCSQPIDINELQEHQDYHFA--LELSTTSEP- 984
I+ T D ++ A T I D S + +E++ L+ P
Sbjct: 268 --ILLTTRFKQVTD-FLSAATTTHISLDHHSMTLTPDEVKSL----LLKYLDCRPQDLPR 320
Query: 985 ------PNSTSNISNSSSSSKILNKKSSKRGRPSKLNSFKNSENFKKLKTIDQFFK 1034
P S I+ S R + +++K+ K I+
Sbjct: 321 EVLTTNPRRLSIIA------------ESIRDGLATWDNWKHVNCDKLTTIIESSLN 364
Score = 47.2 bits (111), Expect = 4e-05
Identities = 90/626 (14%), Positives = 183/626 (29%), Gaps = 193/626 (30%)
Query: 483 NRIER--KLIDKFKSHIESKLDSCNANVDKLVIGDISEQIK---NIAAENVRKYLRTHSK 537
+ + +L S E + V ++ + IK + R Y+ +
Sbjct: 59 DAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDR 118
Query: 538 DSNASDEDEESFNDKLVSIEREVEESVGKDIEESLKN--------------------VSD 577
N D + F VS + + + ++L D
Sbjct: 119 LYN----DNQVFAKYNVSRLQPYLK-----LRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 578 VLFNEKVENLTMENK---KSIKNECLSPVSSKSKDLTN-ENLGHTFETLPSPILTSDRDI 633
V + KV+ M+ K ++KN C SP + L + L + + P TS D
Sbjct: 170 VCLSYKVQ-CKMDFKIFWLNLKN-CNSPET----VLEMLQKLLYQID----PNWTSRSDH 219
Query: 634 HTSTPCR----RKGSKNVFENKTLKSKEELPLVKR-V-DNTIPNSFEF-----ITYTR-R 681
++ R + + + ++K + L LV V + N+F +T TR +
Sbjct: 220 SSNIKLRIHSIQAELRRLLKSKPYE--NCL-LVLLNVQNAKAWNAFNLSCKILLT-TRFK 275
Query: 682 QV-------KPENISNGNNSDNKTDDEDSPQVITKPIGSISMRKYETTRQSHLNKPKLFA 734
QV +IS ++S T DE ++ K + R + R+ P+ +
Sbjct: 276 QVTDFLSAATTTHISLDHHSMTLTPDE-VKSLLLK---YLDCRPQDLPREVLTTNPRRLS 331
Query: 735 DFPTTSQGNNPDTHEPPNSSNKRGKSYSFFENYLRRKKERERLNSKSCKDETLTHGQVHP 794
+ + + T ++N+ + ++L
Sbjct: 332 IIAESIR-DGLAT----------------WDNW--KHVNCDKLT---------------- 356
Query: 795 SVETNTHTILEEVTSSIETVDNGSIETN--AMTRIRDDIHLARENNTKFLADPIKDTEST 852
TI+E SS+ ++ ++ H+
Sbjct: 357 -------TIIE---SSLNVLEPAEYRKMFDRLSVFPPSAHI------------------- 387
Query: 853 GPSNVISTESNEVIDQTKIRDVSSSDHSQMTSATKADFIKESGDPNNEMCKSTVQFHSNS 912
P+ ++S +VI D + K H S
Sbjct: 388 -PTILLSLIWFDVIKS---------------------------DVMVVVNK----LHKYS 415
Query: 913 -INKGNGNADVSPMD-TVDIINTIADSSTV-DSAINIADPTKIIC-DKCSQPIDINELQE 968
+ K + +S +++ + + + S ++ + K D P
Sbjct: 416 LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYS 475
Query: 969 HQDYHFALELSTTSEPPNSTSNISNSSS--SSKILNKKSSKRGRPSKLNSFKNSENFKK- 1025
H +H L+ E + KI + ++ S LN+ + + +K
Sbjct: 476 HIGHH--LKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY 533
Query: 1026 -----------LKTIDQFFKPKSQSL 1040
+ I F ++L
Sbjct: 534 ICDNDPKYERLVNAILDFLPKIEENL 559
Score = 34.8 bits (79), Expect = 0.17
Identities = 47/355 (13%), Positives = 103/355 (29%), Gaps = 124/355 (34%)
Query: 64 EAKQHCPEI-----ELCRVPSVRGKADISKYRNAGRE-VIAVLSEFSNIVERASIDEAYI 117
E P E R G A +++ + + ++ N++E A + +
Sbjct: 321 EVLTTNPRRLSIIAESIR----DGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD 376
Query: 118 DLTDVVHERMKSIGHIAASQLSNTFVVGFGPDNNDEDAR-KAGVME--WLGQVYSDTDT- 173
L S+ F A ++ W + SD
Sbjct: 377 RL---------SV---------------F-----PPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 174 -------SLMENTEDFQELAIAGVIVEEIRAAVLSKTQFHCSAGIAHNKVLAKLVC---- 222
SL+E ++I + +E ++ + ++ H S + H +
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLE-LKVKLENEYALHRSI-VDHYNIPKTFDSDDLI 465
Query: 223 ------------GLHKPQKQSILPQSSVSMLYANLS-IK-KVRHLGGKLGDEVVETLQCS 268
G H + + M++ + ++ K+RH
Sbjct: 466 PPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWN-------ASG 518
Query: 269 TMLELEKFSLKQLQSHFEEKTASWLY--YIARGIDHEPVNARLVSKSIGCCKRFPGKTCL 326
++L L+QL+ Y YI D++P RLV+
Sbjct: 519 SILNT----LQQLK----------FYKPYI---CDNDPKYERLVN--------------- 546
Query: 327 ATRQDVSHWIQELADEVCERLEDDLTLNKRRAQLLTVSFTQETDGKVNSCSRSIA 381
+ ++ ++E++L + + LL ++ E + + +
Sbjct: 547 ----AILDFLP--------KIEENL-ICSKYTDLLRIALMAEDEAIFEEAHKQVQ 588
>2i5o_A DNA polymerase ETA; zinc finger, DNA polymerase,POL ETA, UBZ,
ubiquitin-binding zinc finger, translesion synthesis,
ubiquitin-binding domain; HET: DNA; NMR {Homo sapiens}
Length = 39
Score = 40.9 bits (95), Expect = 4e-05
Identities = 13/30 (43%), Positives = 20/30 (66%)
Query: 952 IICDKCSQPIDINELQEHQDYHFALELSTT 981
+ C+KC + + ++ EH DYHFALEL +
Sbjct: 10 VPCEKCGSLVPVWDMPEHMDYHFALELQKS 39
>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 = 36.9 bits (84), Expect = 0.011
Identities = 11/39 (28%), Positives = 17/39 (43%), Gaps = 13/39 (33%)
Query: 274 EKFSLKQLQSHFEEKTASWLYYIARGIDHEP---VNARL 309
EK +LK+LQ+ + LY D P + A +
Sbjct: 18 EKQALKKLQASLK------LY----ADDSAPALAIKATM 46
Score = 30.3 bits (67), Expect = 1.9
Identities = 7/32 (21%), Positives = 15/32 (46%), Gaps = 10/32 (31%)
Query: 486 ERKLIDKFKSHIESKL---DSC-----NANVD 509
E++ + K ++ + KL DS A ++
Sbjct: 18 EKQALKKLQASL--KLYADDSAPALAIKATME 47
>2epl_X N-acetyl-beta-D-glucosaminidase; glycoside hydrolase, family 20,
GCNA, hydro; 1.40A {Streptococcus gordonii} PDB: 2epk_X
2epm_X 2epn_A* 2epo_A
Length = 627
Score = 35.0 bits (80), Expect = 0.13
Identities = 5/42 (11%), Positives = 12/42 (28%), Gaps = 3/42 (7%)
Query: 252 HLGGKLGDEVVETLQCSTMLELEKFSLKQLQSHFEEKTASWL 293
++G DE +++ + L E+
Sbjct: 219 NIGM---DEAHLVGLGRYLIKHGFQNRSLLMCQHLERVLDIA 257
>2poe_A Cyclophilin-like protein, putative; cryptosporidium parvum
cyclophilin isomerase, structural genomics; 2.01A
{Cryptosporidium parvum iowa II} PDB: 2qer_A
Length = 185
Score = 33.0 bits (76), Expect = 0.26
Identities = 9/53 (16%), Positives = 23/53 (43%), Gaps = 4/53 (7%)
Query: 799 NTHTILEEVTSSIETVDN-GSIETNAMTRIRDDIHLARENNTKFLADPIKDTE 850
+ I ++ ET++ + ++ + D+I + + ++PI D E
Sbjct: 133 GEYVIFGKLIDGFETLNTLENCPSDKSHKPIDEIII---KDIVIHSNPIADQE 182
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 32.8 bits (74), Expect = 0.34
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 12/70 (17%)
Query: 525 AENVRKYLRTHSKDSNASDEDEESFNDKLVSIEREVEESVGKDIEESLKNVSDVLFNEKV 584
E++RK+ K D + +E+E E KD+EE + +E+V
Sbjct: 84 PESIRKWREEQRKRLQELDAASKV-------MEQEWREKAKKDLEEWNQR-----QSEQV 131
Query: 585 ENLTMENKKS 594
E + N+ +
Sbjct: 132 EKNKINNRIA 141
>2fsf_A Preprotein translocase SECA subunit; ATPase, DNA-RNA helicase,
protein translocation, protein transport; 2.00A
{Escherichia coli} PDB: 2fsg_A* 2fsh_A* 2fsi_A* 2vda_A
3bxz_A*
Length = 853
Score = 32.9 bits (76), Expect = 0.60
Identities = 14/88 (15%), Positives = 31/88 (35%), Gaps = 11/88 (12%)
Query: 515 DISEQIKNIAAENVRKYLRTH-SKDSNASDEDEESFNDKL-------VSIEREVEESVGK 566
D+SE I +I + + + + S D ++L + I +++
Sbjct: 663 DVSETINSIREDVFKATIDAYIPPQSLEEMWDIPGLQERLKNDFDLDLPIAEWLDKEPEL 722
Query: 567 D---IEESLKNVSDVLFNEKVENLTMEN 591
+ E + S ++ K E + E
Sbjct: 723 HEETLRERILAQSIEVYQRKEEVVGAEM 750
>1nkt_A Preprotein translocase SECA 1 subunit; preprotein translocation,
ATPase, transmembrane transport, helicase-like motor
domain; HET: ADP; 2.60A {Mycobacterium tuberculosis}
SCOP: a.162.1.1 a.172.1.1 c.37.1.19 c.37.1.19 PDB:
1nl3_A
Length = 922
Score = 31.5 bits (72), Expect = 1.7
Identities = 10/79 (12%), Positives = 29/79 (36%), Gaps = 3/79 (3%)
Query: 515 DISEQIKNIAAENVRKYLRTHSKDSNASDEDEESFNDKLVS---IEREVEESVGKDIEES 571
++ +Q ++ + + Y+ + + A D D ++ L + + + KD E
Sbjct: 697 NLKDQALDMVRDVITAYVDGATGEGYAEDWDLDALWTALKTLYPVGITADSLTRKDHEFE 756
Query: 572 LKNVSDVLFNEKVENLTME 590
+++ E +
Sbjct: 757 RDDLTREELLEALLKDAER 775
>3bo7_A Peptidyl-prolyl CIS-trans isomerase cyclophilin-T;
isomerase-immunosuppressant complex, immunosuppressant,
cyclophilin, structural G structural genomics
consortium, SGC; HET: BMT; 2.35A {Toxoplasma gondii}
Length = 201
Score = 30.8 bits (70), Expect = 1.8
Identities = 9/51 (17%), Positives = 18/51 (35%), Gaps = 4/51 (7%)
Query: 799 NTHTILEEVTSSIETVDN-GSIETNAMTRIRDDIHLARENNTKFLADPIKD 848
N HTI V ++ + +ET+ + + +P +D
Sbjct: 131 NKHTIFGRVVGGLDVLRQWEKLETDKKDKPLKPPKV---EEIIVFKNPFED 178
>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET:
ATP; NMR {Saccharomyces cerevisiae}
Length = 608
Score = 30.8 bits (70), Expect = 2.5
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 217 LAKLVCGLHKPQKQSILPQSSVSMLYANLSIK 248
L KL+ G KP + +P+ +VSM ++ K
Sbjct: 394 LIKLLAGALKPDEGQDIPKLNVSMKPQKIAPK 425
>3v47_C Flagellin; innate immunity, leucine-rich repeat, innate immune
receptor system; HET: NAG; 2.47A {Salmonella enterica
subsp}
Length = 425
Score = 30.7 bits (68), Expect = 2.6
Identities = 22/280 (7%), Positives = 75/280 (26%), Gaps = 2/280 (0%)
Query: 671 NSFEFITYTRRQVKPENISNGNNSDNKTDDEDSPQVITKPIGSISMRKYETTRQSHLNKP 730
N E IT +++ +++ + N + + + Y +
Sbjct: 110 NDGETITIDLQKIDVKSLGLDGFNVNGPKEATVGDLKSSFKNVTGYDTYAAGADKYRVDI 169
Query: 731 KLFADFPTTSQGNNPDTHEPPNSSNKRGKSYSFFENYLRRKKERERLNSKSCKDETLTHG 790
A + + + + + K + G
Sbjct: 170 NSGAVVTDAVAPDKVYVNAANGQLTTDDAENNTAVDLFKTTKSTAGTAEAKAIAGAIKGG 229
Query: 791 QVHPSVETNTHTILEEVTSSIETVDNGSIETNAMTRIRDDIHLARE--NNTKFLADPIKD 848
+ + + T + + + S N +A + K+
Sbjct: 230 KEGDTFDYKGVTFTIDTKTGDDGNGKVSTTINGEKVTLTVADIAIGAADVNAATLQSSKN 289
Query: 849 TESTGPSNVISTESNEVIDQTKIRDVSSSDHSQMTSATKADFIKESGDPNNEMCKSTVQF 908
++ + + + + K+ D+ +++ + S + + + + + +
Sbjct: 290 VYTSVVNGQFTFDDKTKNESAKLSDLEANNAVKGESKITVNGAEYTANATGDKITLAGKT 349
Query: 909 HSNSINKGNGNADVSPMDTVDIINTIADSSTVDSAINIAD 948
+ ++ +T +++DSA++ D
Sbjct: 350 MFIDKTASGVSTLINEDAAAAKKSTANPLASIDSALSKVD 389
>2cjp_A Epoxide hydrolase; HET: PG4 VPR; 1.95A {Solanum tuberosum} PDB:
3cxu_A*
Length = 328
Score = 30.4 bits (69), Expect = 3.0
Identities = 8/48 (16%), Positives = 18/48 (37%), Gaps = 1/48 (2%)
Query: 303 EPVNARLVSKSIGCCKRFPGKTCLATRQDVSHWIQ-ELADEVCERLED 349
A+ + G K P + + +H++ E E+ + + D
Sbjct: 276 HIPGAKEYIHNGGFKKDVPLLEEVVVLEGAAHFVSQERPHEISKHIYD 323
>3rcn_A Beta-N-acetylhexosaminidase; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, alpha-beta
half sandwich; HET: MSE; 2.51A {Arthrobacter aurescens}
Length = 543
Score = 30.4 bits (69), Expect = 4.0
Identities = 13/48 (27%), Positives = 15/48 (31%), Gaps = 9/48 (18%)
Query: 252 HLGGKLGDEVVETL-----QCSTMLELEKF-SLKQLQSHFEEKTASWL 293
LGG DEV T Q + L S F + A L
Sbjct: 311 SLGG---DEVPLTQWQASAQAQAKAAELGLDDVSGLHSWFVGQLALHL 355
>3kio_B Ribonuclease H2 subunit B; aicardi-goutieres syndrome, RNAse H2,
protein complex, autoimmune disease, endonuclease,
hydrolase, metal-binding; 2.90A {Mus musculus} PDB:
3p5j_B 3puf_B 3p56_B
Length = 332
Score = 29.8 bits (66), Expect = 4.9
Identities = 19/110 (17%), Positives = 35/110 (31%), Gaps = 9/110 (8%)
Query: 937 SSTVDSAINIADPTKIICDKCSQPIDINELQE-HQDYHFALELSTTSEPPNSTSNISNSS 995
S S D + S I + + ++ PP+ +S+
Sbjct: 217 SGGQVSRDKEEDYVRYAHGLISDYIPKELSDDLSKFLKLPEPPASLPNPPSKKLKLSDEP 276
Query: 996 SSSKILNKKSSKRGRPSKLNSFKNSENFKKL--------KTIDQFFKPKS 1037
+K K + + + + K + K L K+ID FF K+
Sbjct: 277 VEAKEDYTKFNTKDLKTGKKNSKMTAAQKALAKVDKSGMKSIDAFFGAKN 326
>1unn_C POL IV, DNA polymerase IV; beta-clamp, translesion, transferase,
DNA-directed D polymerase, DNA replication; HET: DNA;
1.9A {Escherichia coli} SCOP: d.240.1.1
Length = 115
Score = 28.2 bits (63), Expect = 5.3
Identities = 10/85 (11%), Positives = 24/85 (28%), Gaps = 11/85 (12%)
Query: 326 LATRQDVSHWIQELADEVCERLEDDLTLNKRRAQLLTV---SFTQETDGKVNSCSRSIAL 382
+ + I+ L E+ RL Q + + F Q T +
Sbjct: 17 IHHWSECEAIIERLYPELERRLAKVKPDLLIARQGVKLKFDDFQQTT--------QEHVW 68
Query: 383 ASYKLQDIVEVSMQVINKTNSAPPI 407
D++ + + ++ +
Sbjct: 69 PRLNKADLIATARKTWDERRGGRGV 93
>1peq_A Ribonucleoside-diphosphate reductase 2 alpha chain; stranded
alpha/beta barrel, protein-specificity-effector complex,
DTTP; HET: TTP; 2.80A {Salmonella typhimurium} SCOP:
a.98.1.1 c.7.1.2 PDB: 1peo_A* 1pem_A* 1peu_A* 2bq1_E*
Length = 714
Score = 29.6 bits (67), Expect = 6.0
Identities = 17/57 (29%), Positives = 25/57 (43%), Gaps = 9/57 (15%)
Query: 984 PPN-STSNISNSSSS-----SKILNKKSSKRGRPSKLNSFKNSENFKKLKT---IDQ 1031
PP S S I++++SS +KI +K K GR F +EN + I
Sbjct: 587 PPTGSISYINHATSSIHPIVAKIEIRKEGKTGRVYYPAPFMTNENLDMYQDAYDIGP 643
>2ok3_A Peptidyl-prolyl CIS-trans isomerase-like 3; beta-barrel, helix,
disulfide bridge; 2.00A {Homo sapiens} SCOP: b.62.1.1
PDB: 1xyh_A 2oju_A*
Length = 161
Score = 28.7 bits (65), Expect = 6.3
Identities = 12/50 (24%), Positives = 23/50 (46%), Gaps = 5/50 (10%)
Query: 799 NTHTILEEVTSSIETVDN-GSIETNAMT-RIRDDIHLARENNTKFLADPI 846
+T+ +V +ET+D + N T R +D+H+ + A+P
Sbjct: 113 MKYTVFGKVIDGLETLDELEKLPVNEKTYRPLNDVHI---KDITIHANPF 159
>2d9k_A FLN29 gene product; zinc finger, ZF-TRAF, structural genomics,
NPPSFA, national project on protein structural and
functional analyses; NMR {Homo sapiens}
Length = 75
Score = 27.3 bits (60), Expect = 6.7
Identities = 4/20 (20%), Positives = 10/20 (50%)
Query: 954 CDKCSQPIDINELQEHQDYH 973
C C + + + +L+ H +
Sbjct: 46 CGNCGRNVLVKDLKTHPEVC 65
>3bbn_E Ribosomal protein S5; small ribosomal subunit, spinach chloroplast
ribosome, ribonucleoprotein particle, macromolecular
complex; 9.40A {Spinacea oleracea}
Length = 308
Score = 29.1 bits (65), Expect = 7.8
Identities = 20/158 (12%), Positives = 48/158 (30%), Gaps = 4/158 (2%)
Query: 401 TNSAPPISDLTPPLLFLGLSASKFSPLGSHPSIQQFFKPQDHPEPMTSEHSSLPEQSTNH 460
T SA ++ L + + + S S S F T + + +
Sbjct: 8 TPSATSLTTLHRRIPLFPTTTTLLSL--SSSSKPLFLSLSSTRSFPTHL-YCIKKDDIDI 64
Query: 461 DSKKRDKTLLNFNQQTPFQLALNRIERKLIDKFKSHIESKLDSCNANVDKLVIGDISEQI 520
++D P + I + +D+ E ++ + S
Sbjct: 65 TFFEQDNPDEEITFDPP-EKPEGYIPPRAVDEPPFESEEEIALAYEELYGAAYSGESLLG 123
Query: 521 KNIAAENVRKYLRTHSKDSNASDEDEESFNDKLVSIER 558
++ A + + T + ++ + F + +V + R
Sbjct: 124 NDVYAMDSKIKKATGFGSKSKKEKIRDGFEENVVQVRR 161
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
0.311 0.127 0.357
Gapped
Lambda K H
0.267 0.0562 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 14,730,975
Number of extensions: 870718
Number of successful extensions: 1474
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1409
Number of HSP's successfully gapped: 60
Length of query: 1041
Length of database: 6,701,793
Length adjustment: 103
Effective length of query: 938
Effective length of database: 3,825,930
Effective search space: 3588722340
Effective search space used: 3588722340
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 62 (28.0 bits)