RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2540
(58 letters)
>3jv3_A Intersectin-1; SH3 domain, DH domain, guanine nucleotide exchange
factor, autoinhibition, domain-swapped, cell junction,
cell project endocytosis; 2.40A {Mus musculus} PDB:
3gf9_A
Length = 283
Score = 54.0 bits (130), Expect = 5e-11
Identities = 15/47 (31%), Positives = 25/47 (53%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I P+QRVT+YPL++ + + TP++H L A + +N
Sbjct: 220 ILKPMQRVTRYPLIIKNILENTPENHPDHSHLKHALEKAEELCSQVN 266
>2z0q_A XPLN, RHO guanine nucleotide exchange factor 3; DH-PH domain,
alternative splicing, cytoplasm, guanine- nucleotide
releasing factor; 1.79A {Mus musculus} PDB: 3eo2_A
Length = 346
Score = 52.5 bits (126), Expect = 3e-10
Identities = 17/47 (36%), Positives = 27/47 (57%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
+ +P R+ KYPLLL + + TP+ + + L EA + IQ + IN
Sbjct: 153 LDIPRSRLVKYPLLLREILRHTPNDNPDQQHLEEAINIIQGIVAEIN 199
>1foe_A T-lymphoma invasion and metastasis inducing protein 1; DBL homology
domain, pleckstrin homology domain, GTPase, guanine
nucleotide exchange factor; 2.80A {Mus musculus} SCOP:
a.87.1.1 b.55.1.1
Length = 377
Score = 52.3 bits (125), Expect = 3e-10
Identities = 17/45 (37%), Positives = 21/45 (46%)
Query: 13 VPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
P+QRV KYPLLL L+ +T L A + HIN
Sbjct: 159 KPIQRVLKYPLLLRELFALTDAESEEHYHLDVAIKTMNKVASHIN 203
>3ky9_A Proto-oncogene VAV; calponin homology domain, DBL homology domain,
pleckst homology domain, C1 domain, guanine-nucleotide
releasing FA metal-binding; 2.73A {Homo sapiens} PDB:
2d86_A
Length = 587
Score = 51.6 bits (123), Expect = 5e-10
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 13 VPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
VP+QRV KY LLL L K T + K+ L A ++ + +N
Sbjct: 331 VPMQRVLKYHLLLQELVKHTQEAM-EKENLRLALDAMRDLAQCVN 374
>1by1_A Protein (PIX); RHO-GTPase exchange factor, transport protein; NMR
{Homo sapiens} SCOP: a.87.1.1
Length = 209
Score = 50.8 bits (122), Expect = 7e-10
Identities = 11/44 (25%), Positives = 19/44 (43%)
Query: 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
P R+ KYP LL L + D+HT + + ++ +
Sbjct: 148 PFMRLDKYPTLLKELERHMEDYHTDRQDIQKSMAAFKNLSAQCQ 191
>2vrw_B P95VAV, VAV1, proto-oncogene VAV; lipoprotein, GTP-binding,
metal-binding, phosphoprotein, exchange factor, RAC,
GTPase, membrane domain; 1.85A {Mus musculus} PDB:
3bji_A 1f5x_A
Length = 406
Score = 50.2 bits (120), Expect = 1e-09
Identities = 19/45 (42%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 13 VPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
VP+QRV KY LLL L K T D T K+ L A ++ + +N
Sbjct: 159 VPMQRVLKYHLLLQELVKHTQD-ATEKENLRLALDAMRDLAQCVN 202
>3jzy_A Intersectin 2; C2 domain, structural genomics consortium (SGC),
endocytosis; 1.56A {Homo sapiens} PDB: 3qbv_B* 1ki1_B
Length = 510
Score = 50.0 bits (119), Expect = 2e-09
Identities = 14/47 (29%), Positives = 24/47 (51%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
+ P+QR+T+YPLL+ + + TP+ H L A + +N
Sbjct: 165 LLKPMQRITRYPLLIRSILENTPESHADHSSLKLALERAEELCSQVN 211
>1xcg_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; X-RAY
crystallography, regulation of RHOA GTPase, protein
complex; 2.50A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 3kz1_A*
Length = 368
Score = 49.5 bits (118), Expect = 3e-09
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I +QR+TKYPLLL + K T + + L A+ + L+++N
Sbjct: 162 IISEMQRLTKYPLLLESIIKHTEGGTSEHEKLCRARDQCREILKYVN 208
>2pz1_A RHO guanine nucleotide exchange factor 4; helical bundle, beta
barrel, beta sandwich, signaling protei; 2.25A {Homo
sapiens} PDB: 2dx1_A 3nmz_D 3nmx_D
Length = 466
Score = 49.2 bits (117), Expect = 4e-09
Identities = 17/47 (36%), Positives = 24/47 (51%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
+ PVQ++ KYPL LA L K T H + A H ++ + IN
Sbjct: 254 LLTPVQKICKYPLQLAELLKYTHPQHRDFKDVEAALHAMKNVAQLIN 300
>3t06_A PDZ-rhogef, RHO guanine nucleotide exchange factor 11; DH-PH RHOA
complex, pdzrhogef, guanine nucleotide exchange F RHOA,
signaling protein; 2.84A {Homo sapiens}
Length = 418
Score = 49.1 bits (117), Expect = 4e-09
Identities = 16/47 (34%), Positives = 26/47 (55%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I +QR+TKYPLLL + K T + + L A+ + L+++N
Sbjct: 204 IISEMQRLTKYPLLLESIIKHTEGGTSEHEKLCRARDQCREILKYVN 250
>2dfk_A Collybistin II; DH domain, PH domain, cell cycle; 2.15A {Rattus
norvegicus} SCOP: a.87.1.1 b.55.1.1
Length = 402
Score = 48.7 bits (116), Expect = 6e-09
Identities = 16/46 (34%), Positives = 23/46 (50%)
Query: 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
PVQ++ KYPL LA L K T H+ + A ++ + IN
Sbjct: 178 LTPVQKICKYPLQLAELLKYTAQDHSDYRYVAAALAVMRNVTQQIN 223
>3odw_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 3.20A {Homo
sapiens} PDB: 3odx_A
Length = 536
Score = 48.1 bits (114), Expect = 8e-09
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I +QR+TKYPLLL + + T + + + A + L H+N
Sbjct: 322 IPTEMQRLTKYPLLLQSIGQNTEEPTEREK-VELAAECCREILHHVN 367
>2rgn_B RHOA/RAC/CDC42 exchange factor; heterotrimeric G-protein, small
molecular weight G-protein, complex, protein-protein
complex, rhogef, galphaq; HET: GDP; 3.50A {Homo sapiens}
Length = 354
Score = 47.6 bits (113), Expect = 1e-08
Identities = 13/44 (29%), Positives = 17/44 (38%)
Query: 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
PVQR+ KY LLL K L +A + + N
Sbjct: 143 PVQRIMKYQLLLKDFLKYYNRAGMDTADLEQAVEVMCFVPKRCN 186
>3mpx_A FYVE, rhogef and PH domain-containing protein 5; structural
genomics consortium, DH domain, SGC, L binding protein;
2.80A {Homo sapiens}
Length = 434
Score = 47.7 bits (113), Expect = 1e-08
Identities = 10/45 (22%), Positives = 14/45 (31%)
Query: 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58
VQR+ +Y +LL D A I + N
Sbjct: 169 VVQRLFQYQVLLTDYLNNLCPDSAEYDNTQGALSLISKVTDRAND 213
>3p6a_A RHO guanine nucleotide exchange factor 1; regulation of RHOA
GTPase, rhogef, DH, PH, signaling PR; 2.50A {Homo
sapiens} PDB: 3odo_A
Length = 377
Score = 46.4 bits (110), Expect = 3e-08
Identities = 15/47 (31%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I +QR+TKYPLLL + + T + ++ + A + L H+N
Sbjct: 169 IPTEMQRLTKYPLLLQSIGQNTEEPTE-REKVELAAECCREILHHVN 214
>1dbh_A Protein (human SOS 1); guanine nucleotide exchange factor, gene
regulation; 2.30A {Homo sapiens} SCOP: a.87.1.1 b.55.1.1
PDB: 1pms_A 1awe_A
Length = 354
Score = 45.3 bits (107), Expect = 9e-08
Identities = 9/45 (20%), Positives = 16/45 (35%), Gaps = 1/45 (2%)
Query: 13 VPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
PV Y LL +L + + D + L +A + +
Sbjct: 148 APVYHCLHYFELLKQLEEKSEDQEDKECLK-QAITALLNVQSGME 191
>1txd_A RHO guanine nucleotide exchange factor 12; helical bundle (DH),
beta sandwich (PH), signaling protein; 2.13A {Homo
sapiens} SCOP: a.87.1.1 b.55.1.1 PDB: 1x86_A
Length = 385
Score = 44.9 bits (106), Expect = 1e-07
Identities = 16/47 (34%), Positives = 26/47 (55%), Gaps = 1/47 (2%)
Query: 11 ITVPVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
I +QR+TKYPLLL + K T T ++ + +A + + L +N
Sbjct: 167 IPTQMQRLTKYPLLLDNIAKYTEW-PTEREKVKKAADHCRQILNFVN 212
>1kz7_A Guanine nucleotide exchange factor DBS; guanine nucleotide exchange
factor (GEF), small G-protein, signaling protein; 2.40A
{Mus musculus} SCOP: a.87.1.1 b.55.1.1 PDB: 1lb1_A
1kzg_A 1rj2_A
Length = 353
Score = 41.1 bits (96), Expect = 3e-06
Identities = 18/44 (40%), Positives = 25/44 (56%), Gaps = 1/44 (2%)
Query: 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
PVQR+TKY LLL + K + G + L EA +I L+ +N
Sbjct: 147 PVQRITKYQLLLKEMLKYSKHCE-GAEDLQEALSSILGILKAVN 189
>1nty_A Triple functional domain protein; DBL, pleckstrin, GEF, RHO,
GTPase, guanine-nucleotide releas factor,
phosphorylation, signaling protein; 1.70A {Homo sapiens}
SCOP: a.87.1.1 b.55.1.1 PDB: 2nz8_B 2kr9_A
Length = 311
Score = 39.8 bits (93), Expect = 6e-06
Identities = 12/44 (27%), Positives = 18/44 (40%), Gaps = 3/44 (6%)
Query: 14 PVQRVTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
PVQR+TKY LLL L + + + + + N
Sbjct: 142 PVQRITKYQLLLKELLTCCEEGK---GEIKDGLEVMLSVPKRAN 182
>3ksy_A SOS-1, SON of sevenless homolog 1; RAS, RAS activator, disease
mutation, guanine-nucleotide releasing factor, signaling
protein; 3.18A {Homo sapiens} PDB: 1xd4_A 1xdv_A 1q9c_A
Length = 1049
Score = 29.8 bits (66), Expect = 0.027
Identities = 15/49 (30%), Positives = 21/49 (42%), Gaps = 2/49 (4%)
Query: 12 TVPVQRVTKYPLLLARLYKVTPDHHTGKDL--LIEAQHNIQLHLEHINS 58
PV Y LL +L + + D + L I A N+Q +E I S
Sbjct: 344 LAPVYHCLHYFELLKQLEEKSEDQEDKECLKQAITALLNVQSGMEKICS 392
>2gx8_A NIF3-related protein; structural genomics, unknown function,
protein structure initiative, midwest center for
structural genomics, MCSG; HET: EPE; 2.20A {Bacillus
cereus} SCOP: c.135.1.1
Length = 397
Score = 26.2 bits (57), Expect = 0.53
Identities = 9/40 (22%), Positives = 19/40 (47%)
Query: 18 VTKYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
+ +PL+ L + D GK + +++I ++ H N
Sbjct: 90 IAHHPLIFNPLKAIHTDKAYGKIIEKCIKNDIAIYAAHTN 129
>2g0d_A Nisin biosynthesis protein NISC; alpha toroid, alpha barrel,
biosynthetic protein; 2.21A {Lactococcus lactis subsp}
SCOP: a.102.6.1 PDB: 2g02_A
Length = 409
Score = 24.4 bits (52), Expect = 2.2
Identities = 6/36 (16%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 23 LLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHINS 58
L+LA L K + + I+ + +++
Sbjct: 42 LMLAELKNKDNS----KIYQKKIDNYIEYIVSKLST 73
>2b0o_E UPLC1; arfgap, structural genomics, structural genomics consortium,
SGC, metal binding protein; 2.06A {Homo sapiens}
Length = 301
Score = 24.2 bits (52), Expect = 3.2
Identities = 8/38 (21%), Positives = 15/38 (39%), Gaps = 4/38 (10%)
Query: 20 KYPLLLARLYKVTPDHHTGKDLLIEAQHNIQLHLEHIN 57
+ L +A H ++LL +AQ H++
Sbjct: 260 ETALDIA----RKKHHKECEELLEQAQAGTFAFPLHVD 293
>1l5a_A Amide synthase, VIBH; nonribosomal peptide synthetase, NRPS
condensation domain, vibriobactin, biosynthetic protein;
2.55A {Vibrio cholerae} SCOP: c.43.1.2 c.43.1.2
Length = 436
Score = 22.9 bits (50), Expect = 6.7
Identities = 3/15 (20%), Positives = 9/15 (60%)
Query: 22 PLLLARLYKVTPDHH 36
P+ ++Y+++ H
Sbjct: 104 PITSHQVYRLSHSEH 118
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
0.323 0.136 0.387
Gapped
Lambda K H
0.267 0.0593 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 862,497
Number of extensions: 36097
Number of successful extensions: 94
Number of sequences better than 10.0: 1
Number of HSP's gapped: 94
Number of HSP's successfully gapped: 25
Length of query: 58
Length of database: 6,701,793
Length adjustment: 30
Effective length of query: 28
Effective length of database: 5,864,163
Effective search space: 164196564
Effective search space used: 164196564
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 (22.0 bits)
S2: 51 (23.7 bits)