The main genetic factor related to HIV-1 resistance is the CCR5-D32 mutation; however, the homozygous genotype is uncommon. The CCR5-D32 mutation along with single nucleotide polymorphisms (SNPs) in the CCR5 promoter and the CCR2-V64I mutation have been included in seven human haplogroups (HH) previously associated with resistance/susceptibility to HIV-1 infection and different rates of AIDS progression. Here, we determined the association of the CCR5 promoter SNPs, the CCR5-D32 mutation, CCR2-V64I SNP, and HH frequencies with resistance/susceptibility to HIV-1 infection in a cohort of HIV-1-serodiscordant couples from Colombia. Seventy HIV-1-exposed, but seronegative (HESN) individuals, 57 seropositives (SP), and 112 healthy controls (HC) were included. The CCR5-D32 mutation and CCR2-V64I SNP were identified by PCR, and the CCR5 promoter SNPs were evaluated by sequencing. None of the individuals exhibited a homozygous D32 genotype; the CCR2-I allele was more frequent in HESN (34%) than HC (23%) ( p = 0.039, OR = 1.672). The frequency of the 29G allele was higher in SP than HC ( p = 0.003, OR = 3). HHF2 showed a higher frequency in HC (19%) than SP (9%) ( p = 0.027), while HHG1 was more frequent in SP (11.1%) than in HC (4.2%) ( p = 0.019). The AGACCAC-CCR2-I-CCR5 wild-type haplotype showed a higher frequency in SP (14.2%) than in HC (3.7%) ( p = 0.001). In conclusion, the CCR5-D32 allele is not responsible for HIV-1 resistance in this HESN group; however, the CCR2-I allele could be protective, while the 29G allele might increase the likelihood of acquiring HIV-1 infection. HHG1 and the AGACCAC-CCR2-I-CCR5 wild-type haplotype might promote HIV-1 infection while HHF2 might be related to resistance. However, additional studies are required to evaluate the implications of these findings.