1. a.248.1 SP0561-like
SP0561-like 5 helices; array; includes extra N-terminal and C-terminal short strands forming parrallel beta-sheet ladder
2fi0 d2fi0a1 A:7-11,14-23,22-33,62-74,75-79
2. c.72.1 Ribokinase-like has extra strand located between strands 2 and 3 !
Ribokinase-like core: 3 layers: a/b/a; mixed beta-sheet of 8 strands, order 21345678, strand 7 is antiparallel to the rest ! potential superfamily: members of this fold have similar functions but different ATP-binding sites
1c3q d1c3qc1 C:118-123,123-132,134-142,146-162,163-169
1u2x d1u2xb_ B:304-309,309-321,322-333,334-350,352-358
1u2x d1u2xa_ A:304-309,309-321,322-333,334-350,352-358
1esj d1esjc1 C:118-123,123-132,134-142,147-162,163-169
1ua4 d1ua4a_ A:287-292,292-304,305-314,319-335,337-344
1gc5 d1gc5a_ A:300-305,305-317,318-328,329-345,347-354
1l2l d1l2la_ A:290-295,295-307,308-319,322-338,340-346
3. c.3.1 FAD/NAD(P)-binding domain
FAD/NAD(P)-binding domain core: 3 layers, b/b/a; central parallel beta-sheet of 5 strands, order 32145; top antiparallel beta-sheet of 3 strands, meander
2ive d2ivea1 A:277-282,284-297,296-307,418-434,435-439
2ive d2iveb1 B:277-282,284-297,296-307,418-434,435-439
2ivd d2ivda1 A:277-282,284-297,296-307,418-434,435-439
2ivd d2ivdb1 B:277-282,284-297,296-307,418-434,435-439
4. c.37.1 P-loop containing nucleoside triphosphate hydrolases division into families based on beta-sheet topologies !
P-loop containing nucleoside triphosphate hydrolases 3 layers: a/b/a, parallel or mixed beta-sheets of variable sizes
2fna d2fnab2 B:56-62,72-92,91-101,122-135,137-144
2fna d2fnaa2 A:56-62,72-92,91-101,122-135,137-144
1fnm d1fnma2 A:160-164,202-222,224-234,238-253,255-264
1efg d1efga2 A:160-164,202-221,224-234,238-253,255-264
2bm1 d2bm1a2 A:160-164,202-222,224-234,238-253,255-264
2bm0 d2bm0a2 A:160-164,202-221,224-234,238-253,255-264
1elo d1eloa2 A:160-164,205-225,224-234,238-253,255-264
1ktv d1ktvb2 B:160-164,205-225,224-234,238-253,255-264
1dar d1dara2 A:160-164,202-225,224-234,238-253,255-264
2efg d2efga2 A:160-164,202-225,224-234,238-253,255-264
1ktv d1ktva2 A:160-164,205-225,224-234,238-253,255-264
2bv3 d2bv3a2 A:160-164,202-225,224-234,238-253,255-264
5. c.143.1 CofD-like
CofD-like 3 layers: a/b/a, parallel beta-sheet of 7 strands, order 3214567; topological similarity to the CobT-like fold (scop_cf 52732)
2hzb d2hzbb1 B:26-34,53-65,89-103,104-117,120-125
2hzb d2hzbc1 C:26-34,53-65,89-103,104-117,120-125
2hzb d2hzba1 A:26-34,53-65,89-103,104-117,120-125
2hzb d2hzbd1 D:26-34,53-65,89-103,104-117,120-125
2hzb d2hzbc1 C:26-34,53-65,68-77,104-117,120-125
2hzb d2hzbb1 B:26-34,53-65,68-77,104-117,120-125
2hzb d2hzbd1 D:26-34,53-65,68-77,104-117,120-125
2hzb d2hzba1 A:26-34,53-65,68-77,104-117,120-125
6. e.29.1 beta and beta-prime subunits of DNA dependent RNA-polymerase The catalytic site is formed by the association of two double-psi beta-barrel domains, one from each subunit !
beta and beta-prime subunits of DNA dependent RNA-polymerase Multidomain subunits of complex domain organization
3dxj d3dxjn1 N:640-645,645-654,669-680,684-696,717-721
1zyr d1zyrd1 D:640-645,645-654,669-680,684-696,713-721
2o5j d2o5jn1 N:640-645,645-654,669-680,684-696,713-721
2o5j d2o5jd1 D:640-645,645-654,669-680,684-696,712-721
2a6h d2a6hn1 N:640-645,645-654,669-680,684-696,712-721
2a68 d2a68n1 N:640-645,645-654,669-680,684-696,712-721
2a68 d2a68d1 D:640-645,645-654,669-680,684-696,712-721
2a6h d2a6hd1 D:640-645,645-654,669-680,684-696,712-721
2a69 d2a69d1 D:640-645,645-654,669-680,684-696,712-721
2a69 d2a69n1 N:640-645,645-654,669-680,684-696,712-721
3dxj d3dxjd1 D:640-645,645-654,669-680,684-696,712-721
7. c.51.5 CinA-like
Anticodon-binding domain-like 3 layers: a/b/a; mixed beta-sheet of five strands, order 21345; strand 4 is antiparallel to the rest
2a9s d2a9sa1 A:25-32,59-68,70-78,81-97,99-107
2a9s d2a9sb1 B:25-32,59-68,70-78,81-97,99-107
8. c.1.10 Aldolase Common fold covers whole protein structure !
TIM beta/alpha-barrel contains parallel beta-sheet barrel, closed; n=8, S=8; strand order 12345678 ! the first seven superfamilies have similar phosphate-binding sites
1i2n d1i2nb_ B:30-35,35-46,45-64,65-90,91-97
1i2n d1i2na_ A:30-35,35-46,45-64,65-90,91-97
1i2r d1i2rb_ B:30-35,35-46,45-64,65-90,91-97
1i2r d1i2ra_ A:30-35,35-46,45-64,65-90,91-97
1i2p d1i2pb_ B:30-35,35-46,45-64,65-90,91-97
1i2p d1i2pa_ A:30-35,35-46,45-64,65-90,91-97
9. i.1.1 Ribosome and ribosomal fragments
Ribosome and ribosomal fragments
1pn6 d1pn6a_ A:160-164,202-225,224-234,238-253,255-264
List of motif hits that are not present in SCOP but are found in PDB for pattern ID: 850 (enumeration index: query65) of S5
3cnp A:247-252,254-264,279-290,458-469,473-477
3cnp B:247-252,254-264,279-290,458-469,473-477
2jb3 A:287-292,294-302,306-316,441-450,453-457
2jb3 B:287-292,294-302,306-316,441-450,453-457
2o2z A:26-34,53-65,68-77,104-117,120-125
2o2z B:26-34,53-65,89-103,104-117,120-125
2o2z A:26-34,53-65,89-103,104-117,120-125
2o2z D:26-34,53-65,68-77,104-117,120-125
2o2z C:26-34,53-65,89-103,104-117,120-125
2o2z D:26-34,53-65,89-103,104-117,120-125
2o2z C:26-34,53-65,68-77,104-117,120-125
2o2z B:26-34,53-65,68-77,104-117,120-125
3cn8 A:247-252,254-264,279-290,458-469,473-477
3cn8 B:247-252,254-264,279-289,458-469,473-477
3c3e B:26-31,44-56,89-106,108-121,124-129
3c3e D:26-31,44-56,89-106,108-121,124-129
3c3e A:26-31,44-56,89-106,108-121,124-129
3c3e C:26-31,44-56,89-106,108-121,124-129
3c3d B:26-31,44-56,89-106,108-121,124-129
3c3d C:26-31,44-56,89-106,108-121,124-129
3c3d A:26-31,44-56,89-106,108-121,124-129
3c3d D:26-31,44-56,89-106,108-121,124-129
3drw B:282-287,287-299,300-311,312-328,330-336
3drw A:282-287,287-299,300-311,312-328,330-336
2eex A:39-44,70-77,79-86,87-101,103-110
2wri Y:160-164,205-225,224-234,238-253,255-264
2yjq B:41-46,72-79,81-88,89-103,104-111
3bnu B:247-252,254-264,279-289,458-469,473-477
3bnu A:247-252,254-264,279-290,458-469,473-477
2xsy Y:160-164,205-225,224-234,238-253,255-264
2xex A:158-162,200-223,222-232,236-251,253-262
2xex B:158-162,200-223,222-232,236-251,253-262
3cnt A:247-252,254-264,279-290,458-469,473-477
3cnt B:247-252,254-263,279-289,458-469,473-477
2bac A:248-253,255-263,266-276,382-391,395-399
2yr6 B:404-410,411-423,457-471,621-641,646-651
2yr6 A:404-410,411-423,457-471,621-641,646-651
2ba9 A:248-253,255-263,266-276,382-391,395-399
2ppv A:27-34,53-66,69-77,103-116,119-124
2ppv A:27-34,53-66,88-102,103-116,119-124
2j7k A:160-164,202-221,224-234,238-253,255-264
2kt9 A:8-18,46-59,62-87,91-100,102-106
3ayl A:404-410,411-423,457-471,621-641,646-651
3ayl B:404-410,411-423,457-471,621-641,646-651
3eql N:640-645,645-654,669-680,684-696,712-721
3bnm A:247-252,254-264,279-290,458-469,473-477
3bnm B:247-252,254-264,279-289,458-469,473-477
3adv B:246-250,251-263,264-271,276-304,345-349
3fd9 A:108-114,115-137,236-246,249-264,269-275
3fd9 C:108-114,115-137,236-246,249-264,269-275
3fd9 B:108-114,115-137,236-246,249-264,269-275
2yr4 A:404-410,411-423,457-471,621-641,646-651
2yr4 B:404-410,411-423,457-471,621-641,646-651
1z6l B:247-252,254-263,279-290,460-469,473-477
1z6l A:247-252,254-264,279-290,460-469,473-477
1xpq B:247-252,254-263,279-289,460-469,473-477
1xpq A:247-252,254-264,279-289,460-469,473-477
1xpq C:247-252,254-264,279-290,460-469,473-477
1xpq D:247-252,254-264,279-290,460-469,473-477
3bi4 A:247-252,254-264,279-290,458-469,473-477
3bi4 B:247-252,254-264,279-290,458-469,473-477
2jb1 A:287-292,294-302,306-316,441-450,453-457
2jb1 B:287-292,294-302,306-316,441-450,453-457
3m6m B:147-153,171-181,181-192,196-204,207-211
3m6m A:147-153,171-181,181-192,196-204,207-211
3m6m C:147-153,171-181,181-192,196-204,207-211
1yy5 A:247-252,254-264,279-290,460-469,473-477
1yy5 B:247-252,254-263,279-290,460-469,473-477
2xuy Y:160-164,205-225,224-234,238-253,255-264
2eo7 A:39-44,70-77,79-86,87-101,103-110
3cgw A:26-31,44-56,89-106,108-121,124-129
3p27 B:166-174,179-192,195-204,217-225,244-252
3ty0 B:746-750,751-763,764-773,776-804,845-849
3cnd A:247-252,254-264,279-290,458-469,473-477
3cnd B:247-252,254-263,279-289,458-469,473-477
2jb2 A:287-292,294-302,306-316,441-450,453-457
2jb2 B:287-292,294-302,306-316,441-450,453-457
3lov A:278-283,285-294,298-305,415-432,433-437
2b9w A:248-253,255-263,266-276,382-391,395-399
3ayj A:404-410,411-423,457-471,621-641,646-651
3ayj B:404-410,411-423,457-471,621-641,646-651
3ayi A:404-410,411-423,457-471,621-641,646-651
3ayi B:404-410,411-423,457-471,621-641,646-651
3bi2 A:247-252,254-264,279-290,458-469,473-477
3bi2 B:247-252,254-264,279-289,458-469,473-477
2bab A:248-253,255-263,266-276,382-391,395-399
2wrk Y:160-164,202-220,224-234,238-253,255-260
1rsg A:247-252,254-264,279-289,460-469,473-477
1rsg B:247-252,254-264,279-289,460-469,473-477
2yr5 A:404-410,411-423,457-471,621-641,646-651
2yr5 B:404-410,411-423,457-471,621-641,646-651
3nks A:280-285,287-295,299-310,425-441,443-447
2jae A:287-292,294-302,306-316,441-450,453-457
2jae B:287-292,294-302,306-316,441-450,453-457
2b9y A:248-253,255-263,266-276,382-391,395-399
3cns A:247-252,254-264,279-290,458-469,473-477
3cns B:247-252,254-264,279-290,458-469,473-477
2vqz A:379-389,390-406,407-415,441-450,477-482
2b9x A:248-253,255-263,266-276,382-391,395-399
3i6d A:279-284,286-295,297-306,419-436,437-441
3i6d B:279-284,286-295,297-306,419-436,437-441
3bi5 B:247-252,254-264,279-289,458-469,473-477
3bi5 A:247-252,254-264,279-290,458-469,473-477
2rdo 7:165-169,208-231,230-240,244-259,261-270
1zn0 B:160-164,202-225,224-234,238-253,255-264
2om7 L:160-164,202-222,224-234,238-253,255-264