RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy5453
(138 letters)
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 33.3 bits (76), Expect = 0.017
Identities = 12/51 (23%), Positives = 27/51 (52%)
Query: 71 DEQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENL 121
DE +K + ++ EL++ + DL + ++S K + + + L + +E L
Sbjct: 1106 DETSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEAL 1156
Score = 29.4 bits (66), Expect = 0.38
Identities = 9/49 (18%), Positives = 23/49 (46%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENL 121
Q EK ++ Q+L+L+ L++ ++ E + + + + I +
Sbjct: 947 QAEKKKMQQQMLDLEEQLEEEEAARQKLQLEKVTADGKIKKMEDDILIM 995
Score = 29.0 bits (65), Expect = 0.51
Identities = 6/44 (13%), Positives = 18/44 (40%)
Query: 71 DEQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVL 114
Q EK ++ ++++ + + + + + +E L L
Sbjct: 973 KLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDL 1016
Score = 27.5 bits (61), Expect = 1.8
Identities = 11/58 (18%), Positives = 23/58 (39%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMSASSVFQS 130
+ E + L Q+ ELQ + +L ++ +EE + + N + +S
Sbjct: 1066 EGESSDLHEQIAELQAQIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELES 1123
>2wt7_B Transcription factor MAFB; transcription, transcription regulation,
nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 2wty_A* 1k1v_A
Length = 90
Score = 30.3 bits (68), Expect = 0.065
Identities = 13/48 (27%), Positives = 22/48 (45%)
Query: 76 KARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMS 123
+ + + Q L+N L Q+V+ +K+E RL E E L +
Sbjct: 43 RYKRVQQKHHLENEKTQLIQQVEQLKQEVSRLARERDAYKVKSEKLAN 90
>3mq7_A Bone marrow stromal antigen 2; HIV, antiviral protein; 2.28A {Homo
sapiens} PDB: 3mqc_A 3mqb_A 3mkx_A 3nwh_A 2xg7_A* 2x7a_A
Length = 121
Score = 30.6 bits (68), Expect = 0.083
Identities = 19/59 (32%), Positives = 28/59 (47%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMSASSVFQST 131
EKA+ +V EL+ + L+ ++ E RLR ENQVL I + S S+
Sbjct: 63 DAEKAQGQKKVEELEGEITTLNHKLQDASAEVERLRRENQVLSVRIADKKYYPSSQDSS 121
>3iuk_A Uncharacterized protein; PF05960.1, DUF885, M32
carboxypeptidase-like fold, PSI, MCSG structural
genomics, protein structure initiative; 1.85A
{Arthrobacter aurescens}
Length = 562
Score = 29.9 bits (67), Expect = 0.26
Identities = 18/94 (19%), Positives = 36/94 (38%), Gaps = 12/94 (12%)
Query: 31 SSQNSEGPIRADHSLDSISSSFTNSS--SSP------GRNSLD---PDVSPDEQEEKARL 79
+ + P+R ++D+++ ++T +P G + D SP A
Sbjct: 3 AMTTANTPVRPKSAIDAVADAYTEKLIELNPSFATTLGLPGHETEYQDYSPAGAAAHAEA 62
Query: 80 ISQVLELQNTLDDLSQRVDSVKEENLRLRSENQV 113
LE L+ VD+V + +R R ++
Sbjct: 63 TRLALEALAGLEPSDD-VDAVTLDAMRERLGLEL 95
>3a5t_A Transcription factor MAFG; protein-DNA complex, BZIP factor,
acetylation, DNA-binding, isopeptide bond, nucleus;
2.80A {Mus musculus}
Length = 107
Score = 28.9 bits (64), Expect = 0.27
Identities = 12/53 (22%), Positives = 24/53 (45%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMSAS 125
+ + ++Q EL+ +L Q V+ + EN ++ E L E L + +
Sbjct: 50 ASCRVKRVTQKEELEKQKAELQQEVEKLASENASMKLELDALRSKYEALQNFA 102
>1t2k_D Cyclic-AMP-dependent transcription factor ATF-2; protein DNA
complex, transcription/DNA complex; 3.00A {Homo sapiens}
SCOP: h.1.3.1
Length = 61
Score = 27.3 bits (61), Expect = 0.43
Identities = 6/38 (15%), Positives = 14/38 (36%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSE 110
+ L + +L + L V ++ E +L+
Sbjct: 21 KVWVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQL 58
Score = 26.5 bits (59), Expect = 0.78
Identities = 10/33 (30%), Positives = 15/33 (45%)
Query: 82 QVLELQNTLDDLSQRVDSVKEENLRLRSENQVL 114
V L+ +DLS ++ E LR+E L
Sbjct: 23 WVQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQL 55
Score = 23.8 bits (52), Expect = 8.3
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 90 LDDLSQRVDSVKEENLRLRSENQVLGQYIENLMS 123
+ L ++ + + N +L+SE +L + L
Sbjct: 24 VQSLEKKAEDLSSLNGQLQSEVTLLRNEVAQLKQ 57
>3nkz_A Flagellar protein FLIT; structural genomics, PSI-2, protein
structure initiative, MC midwest center for structural
genomics; HET: MSE PG4; 2.11A {Yersinia enterocolitica
subsp}
Length = 123
Score = 28.4 bits (63), Expect = 0.48
Identities = 9/58 (15%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 61 RNSLDPDVSPDEQEEKARLISQVLELQNTLDDLSQ-RVDSVKEENLRLRSENQVLGQY 117
++ S Q+ + +L+ + + L Q R+D + + + + V Y
Sbjct: 52 NITISSCSSLMLQDLLREKLRAILDNEIEIKRLLQLRLDRLSDLVGQSTKQQAVNNTY 109
>1gd2_E Transcription factor PAP1; basic leucine zipper, protein-DNA
complex, transcription/DNA complex; HET: DNA; 2.00A
{Schizosaccharomyces pombe} SCOP: h.1.3.1
Length = 70
Score = 27.3 bits (60), Expect = 0.50
Identities = 8/42 (19%), Positives = 21/42 (50%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVL 114
++ L +QV+ L+ + D ++++ +L E ++L
Sbjct: 28 EDHLKALETQVVTLKELHSSTTLENDQLRQKVRQLEEELRIL 69
Score = 26.2 bits (57), Expect = 1.3
Identities = 9/37 (24%), Positives = 16/37 (43%)
Query: 78 RLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVL 114
R + L+ + L + S EN +LR + + L
Sbjct: 26 RKEDHLKALETQVVTLKELHSSTTLENDQLRQKVRQL 62
>3a7m_A Flagellar protein FLIT; UP-DOWN helix bundle, bacterial flagellum
biogenesis, chaper cytoplasm, repressor, transcription;
3.20A {Salmonella typhimurium}
Length = 122
Score = 28.0 bits (62), Expect = 0.64
Identities = 12/58 (20%), Positives = 22/58 (37%), Gaps = 1/58 (1%)
Query: 61 RNSLDPDVSPDEQEEKARLISQVLELQNTLDDLSQ-RVDSVKEENLRLRSENQVLGQY 117
P ++ Q+ A I Q L+ + L L Q R+D + + + + Y
Sbjct: 49 EKQTPPGITRSIQDMVAGYIKQTLDNEQLLKGLLQQRLDELSSLIGQSTRQKSLNNAY 106
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 28.2 bits (63), Expect = 0.99
Identities = 9/53 (16%), Positives = 17/53 (32%)
Query: 71 DEQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMS 123
E R + L+N + L +++D +E L + L
Sbjct: 911 IEARSVERYKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETE 963
Score = 27.8 bits (62), Expect = 1.5
Identities = 7/53 (13%), Positives = 24/53 (45%)
Query: 72 EQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENLMSA 124
++ L +++++LQ +D+ ++ S+ E+ L + + + +
Sbjct: 919 YKKLHIGLENKIMQLQRKIDEQNKEYKSLLEKMNNLEITYSTETEKLRSDVER 971
>3s9g_A Protein hexim1; cyclin T-binding domain (TBD), cyclin T1/P-TEFB/7SK
snRNA, N transcription; 2.10A {Homo sapiens} PDB: 2gd7_A
Length = 104
Score = 27.1 bits (59), Expect = 1.1
Identities = 13/44 (29%), Positives = 25/44 (56%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQ 116
++E RL + L + +L +D ++ ENL+L +EN++ Q
Sbjct: 50 EDENNRLRLESKRLDARVRELELELDRLRAENLQLLTENELHRQ 93
>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 = 28.1 bits (62), Expect = 1.3
Identities = 21/102 (20%), Positives = 33/102 (32%), Gaps = 26/102 (25%)
Query: 60 GRNSLDPDVSPDEQEEKARLISQVLELQN-TLDDLSQRVDSVKEENLRLRSENQV----- 113
SL P + D E + S +L + N T + + V+ N L + QV
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT---NSHLPAGKQVEISLV 371
Query: 114 -----------------LGQYIENLMSASSVFQSTSPKSGKK 138
L + + S + QS P S +K
Sbjct: 372 NGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQSRIPFSERK 413
>1dh3_A Transcription factor CREB; protein-DNA complex, transcription/DNA
complex; HET: DNA; 3.00A {Mus musculus} SCOP: h.1.3.1
Length = 55
Score = 25.8 bits (57), Expect = 1.4
Identities = 7/25 (28%), Positives = 12/25 (48%)
Query: 90 LDDLSQRVDSVKEENLRLRSENQVL 114
+ L RV ++ +N L E + L
Sbjct: 24 VKSLENRVAVLENQNKTLIEELKAL 48
>1jnm_A Proto-oncogene C-JUN; BZIP, protein-DNA complex, transcription/DNA
complex; 2.20A {Homo sapiens} SCOP: h.1.3.1 PDB: 1fos_F
2h7h_A 1t2k_C 1a02_J* 1s9k_E 1jun_A
Length = 62
Score = 25.8 bits (57), Expect = 1.8
Identities = 8/34 (23%), Positives = 17/34 (50%)
Query: 90 LDDLSQRVDSVKEENLRLRSENQVLGQYIENLMS 123
+ L ++V ++K +N L S +L + + L
Sbjct: 24 IARLEEKVKTLKAQNSELASTANMLREQVAQLKQ 57
Score = 25.4 bits (56), Expect = 2.0
Identities = 7/39 (17%), Positives = 15/39 (38%)
Query: 82 QVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIEN 120
++ L+ + L + + LR + L Q + N
Sbjct: 23 RIARLEEKVKTLKAQNSELASTANMLREQVAQLKQKVMN 61
Score = 25.0 bits (55), Expect = 3.2
Identities = 9/38 (23%), Positives = 20/38 (52%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSE 110
E ARL +V L+ +L+ + ++E+ +L+ +
Sbjct: 21 LERIARLEEKVKTLKAQNSELASTANMLREQVAQLKQK 58
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 25.8 bits (57), Expect = 1.8
Identities = 10/35 (28%), Positives = 16/35 (45%)
Query: 85 ELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIE 119
L +L ++ +++KE L E Q L IE
Sbjct: 27 ALTGECKELEKKNEALKERADSLAKEIQYLKDLIE 61
Score = 24.2 bits (53), Expect = 6.5
Identities = 10/37 (27%), Positives = 19/37 (51%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRS 109
+ E+ L + EL+ + L +R DS+ +E L+
Sbjct: 22 RAEQEALTGECKELEKKNEALKERADSLAKEIQYLKD 58
Score = 23.9 bits (52), Expect = 8.0
Identities = 7/36 (19%), Positives = 18/36 (50%), Gaps = 3/36 (8%)
Query: 90 LDDLSQRVDSVKEENLRLRSENQVLG---QYIENLM 122
+ L+ ++++N L+ L QY+++L+
Sbjct: 25 QEALTGECKELEKKNEALKERADSLAKEIQYLKDLI 60
>3mnf_A PAC2 family protein; PSI2, MCSG, structural genomics, protein
structure initiativ midwest center for structural
genomics; 2.97A {Streptomyces avermitilis}
Length = 250
Score = 27.0 bits (59), Expect = 2.2
Identities = 10/65 (15%), Positives = 30/65 (46%), Gaps = 2/65 (3%)
Query: 57 SSPGRNSLDPDVSPDEQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQ 116
+ P S P+ P + +++++ L +L + + + +L +E+ + +
Sbjct: 181 AVPHYVSQPPN--PKATLALLNRLEDLIDVRIPLGELPEDARAWQVGVDQLAAEDSEVAE 238
Query: 117 YIENL 121
Y+++L
Sbjct: 239 YVQSL 243
>1h6z_A Pyruvate phosphate dikinase; transferase, tropical parasite,
trypanosome; 3.00A {Trypanosoma brucei} SCOP: c.1.12.2
c.8.1.1 d.142.1.5 PDB: 2x0s_A
Length = 913
Score = 26.3 bits (58), Expect = 4.0
Identities = 7/35 (20%), Positives = 15/35 (42%), Gaps = 3/35 (8%)
Query: 70 PDEQEEKARLISQVLELQNTLDDLSQRVDSVKEEN 104
P + + L +L + + RV+++ E N
Sbjct: 654 PHDAAAQFELAQ---KLGMPAEKVRNRVNALHELN 685
>2j5u_A MREC protein; bacterial cell shape determining protein MREC, cell
shape regulation; 2.5A {Listeria monocytogenes}
Length = 255
Score = 25.9 bits (57), Expect = 5.5
Identities = 9/37 (24%), Positives = 14/37 (37%), Gaps = 4/37 (10%)
Query: 73 QEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRS 109
E L ++ EL V +K+EN L+
Sbjct: 25 YTENQHLKERLEELAQLE----SEVADLKKENKDLKE 57
>3ol1_A Vimentin; structural genomics, PSI-2, protein structure initiative,
no structural genomics consortium, NESG, structural
protein; 2.81A {Homo sapiens} PDB: 3uf1_A
Length = 119
Score = 24.9 bits (55), Expect = 6.4
Identities = 9/37 (24%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 75 EKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSEN 111
+KAR+ + L + L +++ E R +EN
Sbjct: 35 DKARVEVERDNLAEDIMRLREKLQE--EMLQREEAEN 69
>2wg5_A General control protein GCN4, proteasome-activating nucleotidase;
transcription hydrolase complex, nucleotide-binding;
2.10A {Saccharomyces cerevisiae} PDB: 2wg6_A
Length = 109
Score = 24.8 bits (54), Expect = 6.7
Identities = 9/41 (21%), Positives = 23/41 (56%)
Query: 81 SQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLGQYIENL 121
++ +L++ +++L + ++ E RLRS ++G + L
Sbjct: 7 HRMKQLEDKVEELLSKNYHLENEVARLRSPPLLVGVVSDIL 47
>3h3m_A Flagellar protein FLIT; structural genomics, PSI-2, protein
structure initiative, MI center for structural genomics,
MCSG, flagellum; 2.50A {Bordetella bronchiseptica}
Length = 126
Score = 24.9 bits (54), Expect = 7.4
Identities = 7/47 (14%), Positives = 13/47 (27%), Gaps = 8/47 (17%)
Query: 61 RNSLDPDVSPDEQEEKARLISQVLE--------LQNTLDDLSQRVDS 99
+ + K L+ ++LE L LS +
Sbjct: 62 ELEPGEPLDEAARGMKFDLLVRILENDAAVRDLALPQLARLSDLLGR 108
>2wt7_A Proto-oncogene protein C-FOS; transcription, transcription
regulation, nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 1fos_E* 1a02_F* 1s9k_D
Length = 63
Score = 24.0 bits (52), Expect = 7.5
Identities = 9/34 (26%), Positives = 15/34 (44%)
Query: 90 LDDLSQRVDSVKEENLRLRSENQVLGQYIENLMS 123
D L D +++E L++E L + E L
Sbjct: 25 TDTLQAETDQLEDEKSALQTEIANLLKEKEKLEF 58
>1vq8_V 50S ribosomal protein L29P; ribosome 50S, protein-protein complex,
RNA-RNA complex, PROT complex, peptidyl transferase
reaction; HET: 1MA OMU OMG UR3 PSU SPS; 2.20A
{Haloarcula marismortui} SCOP: a.2.2.1 PDB: 1vq4_V*
1vq5_V* 1vq6_V* 1vq7_V* 1s72_V* 1vq9_V* 1vqk_V* 1vql_V*
1vqm_V* 1vqn_V* 1vqo_V* 1vqp_V* 1yhq_V* 1yi2_V* 1yij_V*
1yit_V* 1yj9_V* 1yjn_V* 1yjw_V* 2otj_V* ...
Length = 71
Score = 24.2 bits (53), Expect = 7.6
Identities = 9/34 (26%), Positives = 13/34 (38%), Gaps = 1/34 (2%)
Query: 89 TLDDLSQRVDSVKEENLRLRSENQVLGQYIENLM 122
T + +D +K E L R+ G EN
Sbjct: 13 TPAEREAELDDLKTELLNARAVQAAGGA-PENPG 45
>3swk_A Vimentin; cytoskeleton, intermediate filament, alpha-helix,
structural; 1.70A {Homo sapiens}
Length = 86
Score = 24.5 bits (54), Expect = 7.9
Identities = 9/41 (21%), Positives = 18/41 (43%), Gaps = 2/41 (4%)
Query: 75 EKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLG 115
+KAR+ + L + L +++ E R +EN +
Sbjct: 15 DKARVEVERDNLAEDIMRLREKLQE--EMLQREEAENTLQS 53
>2jn6_A Protein CGL2762, transposase; GFT PSI-2, protein structure,
structural genomics, protein structure initiative; NMR
{Corynebacterium glutamicum} SCOP: a.4.1.19
Length = 97
Score = 24.3 bits (53), Expect = 8.4
Identities = 9/61 (14%), Positives = 17/61 (27%), Gaps = 21/61 (34%)
Query: 56 SSSPGRNSLDPDVSPDEQEEKARLISQVLELQNTLDDLSQRVDSVKEENLRLRSENQVLG 115
S+ P + E E+ +L K+EN R+ +
Sbjct: 48 GSNHNVQGTTPSAAVSEAEQIRQL---------------------KKENALQRARTRHPA 86
Query: 116 Q 116
+
Sbjct: 87 E 87
>2w83_C C-JUN-amino-terminal kinase-interacting protein 4; golgi apparatus,
protein transport, ER-golgi transport, ARF, GTPase,
effector, myristate; HET: GTP; 1.93A {Homo sapiens}
Length = 77
Score = 24.1 bits (52), Expect = 9.5
Identities = 13/40 (32%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 81 SQVLELQNTL----DDLSQRVDSVKEENLRLRSENQVLGQ 116
+Q+LE +N L +DL +VD + E L+ E + + Q
Sbjct: 19 TQLLETKNALNIVKNDLIAKVDELTCEKDVLQGELEAVKQ 58
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
0.303 0.122 0.315
Gapped
Lambda K H
0.267 0.0543 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,829,763
Number of extensions: 91423
Number of successful extensions: 208
Number of sequences better than 10.0: 1
Number of HSP's gapped: 205
Number of HSP's successfully gapped: 77
Length of query: 138
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 54
Effective length of database: 4,356,429
Effective search space: 235247166
Effective search space used: 235247166
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 17 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 43 (21.8 bits)
S2: 52 (24.2 bits)